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1. Response-guided first-line therapy and treatment of relapse in aggressive lymphoma: 10-year follow-up of the PETAL trial

Author

Wilop, S., Tometten, M., Korfel, A., Keller, U., de Wit, M., Weissinger, F., Stark, U., Behringer, D., Bückner, U., Nückel, H., Schroers, R., Trenn, G., Hertenstein, B., Bernhard, H., Heike, M., Wörns, M.-A., Kroschinsky, F., Prange-Krex, G., Giagounidis, A., Grigoleit, G. U., Selbach, J., Petrasch, S., Balleisen, J. S., Schütte, J., Dienst, A., Germing, U., Dührsen, U., von Verschuer, U., Reimer, P., Höffkes, H.-G., Runde, V., Spohn, C., Moeller, R., Dürk, H., Kofahl-Krause, D., Heuser, M., Witzens-Harig, M., Müller-Tidow, C., Martens, U. M., Strumberg, D., La Rosée, P., Hochhaus, A., Link, H., Held, G., Kneba, M., Baldus, C., Naumann, R., Chemnitz, J. M., Schulte, K., Limmroth, C., Schwarzer, A., Niederwieser, D., Platzbecker, U., Heil, G., Schwalenberg, M., Grieshammer, M., Beck, C., Stephany, M., Mesters, R., Karsten, I. E., Held, H., Mahlmann, S., Steiniger, H., Gaska, T., Südhoff, T., Kreisel-Büstgens, C., Moorahrend, E., Maschmeyer, G., Jordan, K., Kloke, O., Klein, M., Höhler, T., Grube, M., Herr, W., Hahn, D., Raghavachar, A., Schmalz, O., Fett, W., Sandmann, M., Krohn, T., Brenner, W., Plotkin, M., Franzius, C., Kotzerke, J., Hautzel, H., Bockisch, A., Hertel, A., Bengel, F. M., Haberkorn, U., Freesmeyer, M., Lützen, U., Klein, A., Kluge, R., Larisch, R., Fricke, E., Holzinger, J., Schäfer, W., Weckesser, M., Nyuyki, F., Römer, W., Brink, I., Marienhagen, J., Pöpperl, G., Jöckel, K.-H., Nonnemacher, M., Rekowski, J., Scherag, A., Neuhäuser, M., Dührsen, Ulrich, Bockisch, Andreas, Hertenstein, Bernd, Karsten, Imke E., Kroschinsky, Frank, Heuser, Michael, Hochhaus, Andreas, Höffkes, Heinz-Gert, Behringer, Dirk, Prange-Krex, Gabriele, Tometten, Mareike, Grieshammer, Martin, Grigoleit, Götz U., Schmalz, Oliver, Jordan, Karin, Bernhard, Helga, Gaska, Tobias, Giagounidis, Aristoteles, Schroers, Roland, Martens, Uwe M., Held, Gerhard, Klapper, Wolfram, Jöckel, Karl-Heinz, Nonnemacher, Michael, and Hüttmann, Andreas

Published
2024
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4. Fusarium: more than a node or a foot-shaped basal cell.

Author

Crous, PW, Lombard, L, Sandoval-Denis, M, Seifert, KA, Schroers, H-J, Chaverri, P, Gené, J, Guarro, J, Hirooka, Y, Bensch, K, Kema, GHJ, Lamprecht, SC, Cai, L, Rossman, AY, Stadler, M, Summerbell, RC, Taylor, JW, Ploch, S, Visagie, CM, Yilmaz, N, Frisvad, JC, Abdel-Azeem, AM, Abdollahzadeh, J, Abdolrasouli, A, Akulov, A, Alberts, JF, Araújo, JPM, Ariyawansa, HA, Bakhshi, M, Bendiksby, M, Ben Hadj Amor, A, Bezerra, JDP, Boekhout, T, Câmara, MPS, Carbia, M, Cardinali, G, Castañeda-Ruiz, RF, Celis, A, Chaturvedi, V, Collemare, J, Croll, D, Damm, U, Decock, CA, de Vries, RP, Ezekiel, CN, Fan, XL, Fernández, NB, Gaya, E, González, CD, Gramaje, D, Groenewald, JZ, Grube, M, Guevara-Suarez, M, Gupta, VK, Guarnaccia, V, Haddaji, A, Hagen, F, Haelewaters, D, Hansen, K, Hashimoto, A, Hernández-Restrepo, M, Houbraken, J, Hubka, V, Hyde, KD, Iturriaga, T, Jeewon, R, Johnston, PR, Jurjević, Ž, Karalti, I, Korsten, L, Kuramae, EE, Kušan, I, Labuda, R, Lawrence, DP, Lee, HB, Lechat, C, Li, HY, Litovka, YA, Maharachchikumbura, SSN, Marin-Felix, Y, Matio Kemkuignou, B, Matočec, N, McTaggart, AR, Mlčoch, P, Mugnai, L, Nakashima, C, Nilsson, RH, Noumeur, SR, Pavlov, IN, Peralta, MP, Phillips, AJL, Pitt, JI, Polizzi, G, Quaedvlieg, W, Rajeshkumar, KC, Restrepo, S, Rhaiem, A, Robert, J, Robert, V, and Rodrigues, AM

Subjects
Apiognomonia platani (Lév.) L. Lombard, Atractium ciliatum Link, Atractium pallidum Bonord., Calloria tremelloides (Grev.) L. Lombard, Cephalosporium sacchari E.J. Butler, Cosmosporella cavisperma (Corda) Sand.-Den., L. Lombard & Crous, Cylindrodendrum orthosporum (Sacc. & P. Syd.) L. Lombard, Dialonectria volutella (Ellis & Everh.) L. Lombard & Sand.-Den., Fusarium aeruginosum Delacr., Fusarium agaricorum Sarrazin, Fusarium albidoviolaceum Dasz., Fusarium aleyrodis Petch, Fusarium amentorum Lacroix, Fusarium annuum Leonian, Fusarium arcuatum Berk. & M.A. Curtis, Fusarium aridum O.A. Pratt, Fusarium armeniacum (G.A. Forbes et al.) L.W. Burgess & Summerell, Fusarium arthrosporioides Sherb., Fusarium asparagi Delacr., Fusarium batatas Wollenw., Fusarium biforme Sherb., Fusarium buharicum Jacz. ex Babajan & Teterevn.-Babajan, Fusarium cactacearum Pasin. & Buzz.-Trav., Fusarium cacti-maxonii Pasin. & Buzz.-Trav., Fusarium caudatum Wollenw., Fusarium cavispermum Corda, Fusarium cepae Hanzawa, Fusarium cesatii Rabenh., Fusarium citriforme Jamal., Fusarium citrinum Wollenw., Fusarium citrulli Taubenh., Fusarium clavatum Sherb., Fusarium coccinellum Kalchbr., Fusarium cromyophthoron Sideris, Fusarium cucurbitae Taubenh., Fusarium cuneiforme Sherb., Fusarium delacroixii Sacc., Fusarium dimerum var. nectrioides Wollenw., Fusarium echinatum Sand.-Den. & G.J. Marais, Fusarium epicoccum McAlpine, Fusarium eucheliae Sartory, R. Sartory & J. Mey., Fusarium fissum Peyl, Fusarium flocciferum Corda, Fusarium gemmiperda Aderh., Fusarium genevense Dasz., Fusarium graminearum Schwabe, Fusarium graminum Corda, Fusarium heterosporioides Fautrey, Fusarium heterosporum Nees & T. Nees, Fusarium idahoanum O.A. Pratt, Fusarium juruanum Henn., Fusarium lanceolatum O.A. Pratt, Fusarium lateritium Nees, Fusarium loncheceras Sideris, Fusarium longipes Wollenw. & Reinking, Fusarium lyarnte J.L. Walsh, Sangal., L.W. Burgess, E.C.Y. Liew & Summerell, Fusarium malvacearum Taubenh., Fusarium martii f. phaseoli Burkh., Fusarium muentzii Delacr., Fusarium nigrum O.A. Pratt, Fusarium oxysporum var. asclerotium Sherb., Fusarium palczewskii Jacz., Fusarium palustre W.H. Elmer & Marra, Fusarium polymorphum Matr., Fusarium poolense Taubenh., Fusarium prieskaense G.J. Marais & Sand.-Den., Fusarium prunorum McAlpine, Fusarium pusillum Wollenw., Fusarium putrefaciens Osterw., Fusarium redolens Wollenw., Fusarium reticulatum Mont., Fusarium rhizochromatistes Sideris, Fusarium rhizophilum Corda, Fusarium rhodellum McAlpine, Fusarium roesleri Thüm., Fusarium rostratum Appel & Wollenw., Fusarium rubiginosum Appel & Wollenw., Fusarium rubrum Parav., Fusarium samoense Gehrm., Fusarium scirpi Lambotte & Fautrey, Fusarium secalis Jacz., Fusarium spinaciae Hungerf., Fusarium sporotrichioides Sherb., Fusarium stercoris Fuckel, Fusarium stilboides Wollenw., Fusarium stillatum De Not. ex Sacc., Fusarium sublunatum Reinking, Fusarium succisae Schröt. ex Sacc., Fusarium tabacivorum Delacr., Fusarium trichothecioides Wollenw., Fusarium tritici Liebman, Fusarium tuberivorum Wilcox & G.K. Link, Fusarium tumidum var. humi Reinking, Fusarium ustilaginis Kellerm. & Swingle, Fusarium viticola Thüm., Fusarium werrikimbe J.L. Walsh, L.W. Burgess, E.C.Y. Liew & B.A. Summerell, Fusarium willkommii Lindau, Fusarium xylarioides Steyaert, Fusarium zygopetali Delacr., Fusicolla meniscoidea L. Lombard & Sand.-Den., Fusicolla quarantenae J.D.P. Bezerra, Sand.-Den., Crous & Souza-Motta, Fusicolla sporellula Sand.-Den. & L. Lombard, Fusisporium andropogonis Cooke ex Thüm., Fusisporium anthophilum A. Braun, Fusisporium arundinis Corda, Fusisporium avenaceum Fr., Fusisporium clypeaster Corda, Fusisporium culmorum Wm.G. Sm., Fusisporium didymum Harting, Fusisporium elasticae Thüm., Fusisporium episphaericum Cooke & Ellis, Fusisporium flavidum Bonord., Fusisporium hordei Wm.G. Sm., Fusisporium incarnatum Roberge ex Desm., Fusisporium lolii Wm.G. Sm., Fusisporium pandani Corda, Gibberella phyllostachydicola W. Yamam., Hymenella aurea (Corda) L. Lombard, Hymenella spermogoniopsis (Jul. Müll.) L. Lombard & Sand.-Den., Luteonectria Sand.-Den., L. Lombard, Schroers & Rossman, Luteonectria albida (Rossman) Sand.-Den. & L. Lombard, Luteonectria nematophila (Nirenberg & Hagedorn) Sand.-Den. & L. Lombard, Macroconia bulbipes Crous & Sand.-Den., Macroconia phlogioides Sand.-Den. & Crous, Menispora penicillata Harz, Multi-gene phylogeny, Mycotoxins, Nectriaceae, Neocosmospora, Neocosmospora epipeda Quaedvl. & Sand.-Den., Neocosmospora floridana (T. Aoki et al.) L. Lombard & Sand.-Den., Neocosmospora merkxiana Quaedvl. & Sand.-Den., Neocosmospora neerlandica Crous & Sand.-Den., Neocosmospora nelsonii Crous & Sand.-Den., Neocosmospora obliquiseptata (T. Aoki et al.) L. Lombard & Sand.-Den., Neocosmospora pseudopisi Sand.-Den. & L. Lombard, Neocosmospora rekana (Lynn & Marinc.) L. Lombard & Sand.-Den., Neocosmospora tuaranensis (T. Aoki et al.) L. Lombard & Sand.-Den., Nothofusarium Crous, Sand.-Den. & L. Lombard, Nothofusarium devonianum L. Lombard, Crous & Sand.-Den., Novel taxa, Pathogen, Scolecofusarium L. Lombard, Sand.-Den. & Crous, Scolecofusarium ciliatum (Link) L. Lombard, Sand.-Den. & Crous, Selenosporium equiseti Corda, Selenosporium hippocastani Corda, Selenosporium sarcochroum Desm, Selenosporium urticearum Corda., Setofusarium (Nirenberg & Samuels) Crous & Sand.-Den., Setofusarium setosum (Samuels & Nirenberg) Sand.-Den. & Crous., Sphaeria sanguinea var. cicatricum Berk., Sporotrichum poae Peck., Stylonectria corniculata Gräfenhan, Crous & Sand.-Den., Stylonectria hetmanica Akulov, Crous & Sand.-Den., Taxonomy, Mycology & Parasitology, Microbiology
Abstract

Recent publications have argued that there are potentially serious consequences for researchers in recognising distinct genera in the terminal fusarioid clade of the family Nectriaceae. Thus, an alternate hypothesis, namely a very broad concept of the genus Fusarium was proposed. In doing so, however, a significant body of data that supports distinct genera in Nectriaceae based on morphology, biology, and phylogeny is disregarded. A DNA phylogeny based on 19 orthologous protein-coding genes was presented to support a very broad concept of Fusarium at the F1 node in Nectriaceae. Here, we demonstrate that re-analyses of this dataset show that all 19 genes support the F3 node that represents Fusarium sensu stricto as defined by F. sambucinum (sexual morph synonym Gibberella pulicaris). The backbone of the phylogeny is resolved by the concatenated alignment, but only six of the 19 genes fully support the F1 node, representing the broad circumscription of Fusarium. Furthermore, a re-analysis of the concatenated dataset revealed alternate topologies in different phylogenetic algorithms, highlighting the deep divergence and unresolved placement of various Nectriaceae lineages proposed as members of Fusarium. Species of Fusarium s. str. are characterised by Gibberella sexual morphs, asexual morphs with thin- or thick-walled macroconidia that have variously shaped apical and basal cells, and trichothecene mycotoxin production, which separates them from other fusarioid genera. Here we show that the Wollenweber concept of Fusarium presently accounts for 20 segregate genera with clear-cut synapomorphic traits, and that fusarioid macroconidia represent a character that has been gained or lost multiple times throughout Nectriaceae. Thus, the very broad circumscription of Fusarium is blurry and without apparent synapomorphies, and does not include all genera with fusarium-like macroconidia, which are spread throughout Nectriaceae (e.g., Cosmosporella, Macroconia, Microcera). In this study four new genera are introduced, along with 18 new species and 16 new combinations. These names convey information about relationships, morphology, and ecological preference that would otherwise be lost in a broader definition of Fusarium. To assist users to correctly identify fusarioid genera and species, we introduce a new online identification database, Fusarioid-ID, accessible at www.fusarium.org. The database comprises partial sequences from multiple genes commonly used to identify fusarioid taxa (act1, CaM, his3, rpb1, rpb2, tef1, tub2, ITS, and LSU). In this paper, we also present a nomenclator of names that have been introduced in Fusarium up to January 2021 as well as their current status, types, and diagnostic DNA barcode data. In this study, researchers from 46 countries, representing taxonomists, plant pathologists, medical mycologists, quarantine officials, regulatory agencies, and students, strongly support the application and use of a more precisely delimited Fusarium (= Gibberella) concept to accommodate taxa from the robust monophyletic node F3 on the basis of a well-defined and unique combination of morphological and biochemical features. This F3 node includes, among others, species of the F. fujikuroi, F. incarnatum-equiseti, F. oxysporum, and F. sambucinum species complexes, but not species of Bisifusarium [F. dimerum species complex (SC)], Cyanonectria (F. buxicola SC), Geejayessia (F. staphyleae SC), Neocosmospora (F. solani SC) or Rectifusarium (F. ventricosum SC). The present study represents the first step to generating a new online monograph of Fusarium and allied fusarioid genera (www.fusarium.org).

Published
2021

5. Effect of High Dose Active Vitamin D Therapy on the Development of Hypocalcemia After Subtotal Parathyroidectomy in Patients on Chronic Dialysis

Author

Grube M, Weber F, Kahl AL, Kribben A, Mülling N, and Reinhardt W

Subjects
secondary hyperparathyroidism, hungry bone disease, parathyroidectomy, vitamin d, dialysis, ckd stage 5, Diseases of the genitourinary system. Urology, RC870-923
Abstract

Malina Grube,1 Frank Weber,2 Anna Lena Kahl,3 Andreas Kribben,1 Nils Mülling,1 Walter Reinhardt1 1Department of Nephrology, University Hospital Essen, Essen, Germany; 2Department of General-, Visceral- and Transplantation Surgery, Section of Endocrine Surgery, University Hospital Essen, Essen, Germany; 3Institute of Medical Psychology and Behavioral Immunobiology, University Hospital Essen, Essen, GermanyCorrespondence: Nils MüllingDepartment of Nephrology, University Hospital Essen, Hufelandstr. 55, Essen, 45147, GermanyEmail nils.muelling@uk-essen.deBackground: The period after parathyroidectomy (PTx) in dialysis patients is characterized by periods of severe hypocalcemia. This study aims to investigate the effect of high doses of active vitamin D immediately after PTx on the development of hypocalcemia.Materials and Methods: We retrospectively reviewed 111 patients with secondary hyperparathyroidism receiving subtotal PTx between 2010 and 2019. A high dose group “HDG” (n = 67) receiving 12 μg alfacalcidol in combination with 8.550 mg calcium acetate per day, which was then adapted according to lab values, was compared with a low dose group “LDG” (n = 44) receiving up to 4 μg alfacalcidol per day. The laboratory values were recorded up to ten weeks postoperatively.Results: The assumed drops in parathyroid hormone (PTH) and calcium were observed in both groups after PTx. We observed significantly lower calcium values in the LDG between days 4 and 18 postoperatively than in the HDG (p < 0.001). The proportion of severe hypocalcemia after PTx (total calcium < 1.5 mmol/l) in the HDG was 8.5% on day 1 and 47% on day 4 in the LDG. Intravenous calcium requirements were significantly lower in the HDG (7.6%) than in the LDG (45.7%; p = 0.001).Conclusion: The period after PTx in dialysis patients is characterized by an expected drop in PTH and calcium within the first days. Ongoing high turnover is observed in the 2nd and 3rd week after PTx. Administering high doses of alfacalcidol combined with calcium acetate diminishes the episodes of severe hypocalcemia and the need for intravenous calcium.Keywords: secondary hyperparathyroidism, hungry bone disease, parathyroidectomy, vitamin D, dialysis, CKD stage 5

Published
2021

11. The Prognostic Effect of Immune Cell Infiltration Depends on Molecular Subtype in Endometrioid Ovarian Carcinomas

Author

Heinze, K, Cairns, ES, Thornton, S, Harris, B, Milne, K, Grube, M, Meyer, C, Karnezis, AN, Fereday, S, Garsed, DW, Leung, SCY, Chiu, DS, Moubarak, M, Harter, P, Heitz, F, Mcalpine, JN, Defazio, A, Bowtell, DDL, Goode, EL, Pike, M, Ramus, SJ, Pearce, CL, Staebler, A, Koebel, M, Kommoss, S, Talhouk, A, Nelson, BH, Anglesio, MS, Heinze, K, Cairns, ES, Thornton, S, Harris, B, Milne, K, Grube, M, Meyer, C, Karnezis, AN, Fereday, S, Garsed, DW, Leung, SCY, Chiu, DS, Moubarak, M, Harter, P, Heitz, F, Mcalpine, JN, Defazio, A, Bowtell, DDL, Goode, EL, Pike, M, Ramus, SJ, Pearce, CL, Staebler, A, Koebel, M, Kommoss, S, Talhouk, A, Nelson, BH, and Anglesio, MS

Abstract

PURPOSE: Endometrioid ovarian carcinoma (ENOC) is the second most-common type of ovarian carcinoma, comprising 10%-20% of cases. Recently, the study of ENOC has benefitted from comparisons to endometrial carcinomas including defining ENOC with four prognostic molecular subtypes. Each subtype suggests differential mechanisms of progression, although tumor-initiating events remain elusive. There is evidence that the ovarian microenvironment may be critical to early lesion establishment and progression. However, while immune infiltrates have been well studied in high-grade serous ovarian carcinoma, studies in ENOC are limited. EXPERIMENTAL DESIGN: We report on 210 ENOC, with clinical follow-up and molecular subtype annotation. Using multiplex IHC and immunofluorescence, we examine the prevalence of T-cell lineage, B-cell lineage, macrophages, and populations with programmed cell death protein 1 or programmed death-ligand 1 across subtypes of ENOC. RESULTS: Immune cell infiltrates in tumor epithelium and stroma showed higher densities in ENOC subtypes with known high mutation burden (POLEmut and MMRd). While molecular subtypes were prognostically significant, immune infiltrates were not (overall survival P > 0.2). Analysis by molecular subtype revealed that immune cell density was prognostically significant in only the no specific molecular profile (NSMP) subtype, where immune infiltrates lacking B cells (TILB minus) had inferior outcome (disease-specific survival: HR, 4.0; 95% confidence interval, 1.1-14.7; P < 0.05). Similar to endometrial carcinomas, molecular subtype stratification was generally superior to immune response in predicting outcomes. CONCLUSIONS: Subtype stratification is critical for better understanding of ENOC, in particular the distribution and prognostic significance of immune cell infiltrates. The role of B cells in the immune response within NSMP tumors warrants further study.

Published
2023

12. CCNE1 and survival of patients with tubo-ovarian high-grade serous carcinoma: An Ovarian Tumor Tissue Analysis consortium study

Author

Kang, E-Y, Weir, A, Meagher, NS, Farrington, K, Nelson, GS, Ghatage, P, Lee, C-H, Riggan, MJ, Bolithon, A, Popovic, G, Leung, B, Tang, K, Lambie, N, Millstein, J, Alsop, J, Anglesio, MS, Ataseven, B, Barlow, E, Beckmann, MW, Berger, J, Bisinotto, C, Boesmueller, H, Boros, J, Brand, AH, Brooks-Wilson, A, Brucker, SY, Carney, ME, Casablanca, Y, Cazorla-Jimenez, A, Cohen, PA, Conrads, TP, Cook, LS, Coulson, P, Courtney-Brooks, M, Cramer, DW, Crowe, P, Cunningham, JM, Cybulski, C, Darcy, KM, El-Bahrawy, MA, Elishaev, E, Erber, R, Farrell, R, Fereday, S, Fischer, A, Garcia, MJ, Gayther, SA, Gentry-Maharaj, A, Gilks, CB, Grube, M, Harnett, PR, Harrington, SP, Harter, P, Hartmann, A, Hecht, JL, Heikaus, S, Hein, A, Heitz, F, Hendley, J, Hernandez, BY, Hernando Polo, S, Heublein, S, Hirasawa, A, Hogdall, E, Hogdall, CK, Horlings, HM, Huntsman, DG, Huzarski, T, Jewell, A, Jimenez-Linan, M, Jones, ME, Kaufmann, SH, Kennedy, CJ, Khabele, D, Kommoss, FKF, Kruitwagen, RFPM, Lambrechts, D, Le, ND, Lener, M, Lester, J, Leung, Y, Linder, A, Loverix, L, Lubinski, J, Madan, R, Maxwell, GL, Modugno, F, Neuhausen, SL, Olawaiye, A, Olbrecht, S, Orsulic, S, Palacios, J, Pearce, CL, Pike, MC, Quinn, CM, Mohan, GR, Rodriguez-Antona, C, Ruebner, M, Ryan, A, Salfinger, SG, Sasamoto, N, Schildkraut, JM, Schoemaker, MJ, Shah, M, Sharma, R, Shvetsov, YB, Singh, N, Sonke, GS, Steele, L, Stewart, CJR, Sundfeldt, K, Swerdlow, AJ, Talhouk, A, Tan, A, Taylor, SE, Terry, KL, Toloczko, A, Traficante, N, Van de Vijver, KK, van der Aa, MA, Van Gorp, T, Van Nieuwenhuysen, E, Van-Wagensveld, L, Vergote, I, Vierkant, RA, Wang, C, Wilkens, LR, Winham, SJ, Wu, AH, Benitez, J, Berchuck, A, Candido Dos Reis, FJ, DeFazio, A, Fasching, PA, Goode, EL, Goodman, MT, Gronwald, J, Karlan, BY, Kommoss, S, Menon, U, Sinn, H-P, Staebler, A, Brenton, JD, Bowtell, DD, Pharoah, PDP, Ramus, SJ, Kobel, M, Kang, E-Y, Weir, A, Meagher, NS, Farrington, K, Nelson, GS, Ghatage, P, Lee, C-H, Riggan, MJ, Bolithon, A, Popovic, G, Leung, B, Tang, K, Lambie, N, Millstein, J, Alsop, J, Anglesio, MS, Ataseven, B, Barlow, E, Beckmann, MW, Berger, J, Bisinotto, C, Boesmueller, H, Boros, J, Brand, AH, Brooks-Wilson, A, Brucker, SY, Carney, ME, Casablanca, Y, Cazorla-Jimenez, A, Cohen, PA, Conrads, TP, Cook, LS, Coulson, P, Courtney-Brooks, M, Cramer, DW, Crowe, P, Cunningham, JM, Cybulski, C, Darcy, KM, El-Bahrawy, MA, Elishaev, E, Erber, R, Farrell, R, Fereday, S, Fischer, A, Garcia, MJ, Gayther, SA, Gentry-Maharaj, A, Gilks, CB, Grube, M, Harnett, PR, Harrington, SP, Harter, P, Hartmann, A, Hecht, JL, Heikaus, S, Hein, A, Heitz, F, Hendley, J, Hernandez, BY, Hernando Polo, S, Heublein, S, Hirasawa, A, Hogdall, E, Hogdall, CK, Horlings, HM, Huntsman, DG, Huzarski, T, Jewell, A, Jimenez-Linan, M, Jones, ME, Kaufmann, SH, Kennedy, CJ, Khabele, D, Kommoss, FKF, Kruitwagen, RFPM, Lambrechts, D, Le, ND, Lener, M, Lester, J, Leung, Y, Linder, A, Loverix, L, Lubinski, J, Madan, R, Maxwell, GL, Modugno, F, Neuhausen, SL, Olawaiye, A, Olbrecht, S, Orsulic, S, Palacios, J, Pearce, CL, Pike, MC, Quinn, CM, Mohan, GR, Rodriguez-Antona, C, Ruebner, M, Ryan, A, Salfinger, SG, Sasamoto, N, Schildkraut, JM, Schoemaker, MJ, Shah, M, Sharma, R, Shvetsov, YB, Singh, N, Sonke, GS, Steele, L, Stewart, CJR, Sundfeldt, K, Swerdlow, AJ, Talhouk, A, Tan, A, Taylor, SE, Terry, KL, Toloczko, A, Traficante, N, Van de Vijver, KK, van der Aa, MA, Van Gorp, T, Van Nieuwenhuysen, E, Van-Wagensveld, L, Vergote, I, Vierkant, RA, Wang, C, Wilkens, LR, Winham, SJ, Wu, AH, Benitez, J, Berchuck, A, Candido Dos Reis, FJ, DeFazio, A, Fasching, PA, Goode, EL, Goodman, MT, Gronwald, J, Karlan, BY, Kommoss, S, Menon, U, Sinn, H-P, Staebler, A, Brenton, JD, Bowtell, DD, Pharoah, PDP, Ramus, SJ, and Kobel, M

Abstract

BACKGROUND: Cyclin E1 (CCNE1) is a potential predictive marker and therapeutic target in tubo-ovarian high-grade serous carcinoma (HGSC). Smaller studies have revealed unfavorable associations for CCNE1 amplification and CCNE1 overexpression with survival, but to date no large-scale, histotype-specific validation has been performed. The hypothesis was that high-level amplification of CCNE1 and CCNE1 overexpression, as well as a combination of the two, are linked to shorter overall survival in HGSC. METHODS: Within the Ovarian Tumor Tissue Analysis consortium, amplification status and protein level in 3029 HGSC cases and mRNA expression in 2419 samples were investigated. RESULTS: High-level amplification (>8 copies by chromogenic in situ hybridization) was found in 8.6% of HGSC and overexpression (>60% with at least 5% demonstrating strong intensity by immunohistochemistry) was found in 22.4%. CCNE1 high-level amplification and overexpression both were linked to shorter overall survival in multivariate survival analysis adjusted for age and stage, with hazard stratification by study (hazard ratio [HR], 1.26; 95% CI, 1.08-1.47, p = .034, and HR, 1.18; 95% CI, 1.05-1.32, p = .015, respectively). This was also true for cases with combined high-level amplification/overexpression (HR, 1.26; 95% CI, 1.09-1.47, p = .033). CCNE1 mRNA expression was not associated with overall survival (HR, 1.00 per 1-SD increase; 95% CI, 0.94-1.06; p = .58). CCNE1 high-level amplification is mutually exclusive with the presence of germline BRCA1/2 pathogenic variants and shows an inverse association to RB1 loss. CONCLUSION: This study provides large-scale validation that CCNE1 high-level amplification is associated with shorter survival, supporting its utility as a prognostic biomarker in HGSC.

Published
2023

13. Increased FOXJ1 protein expression is associated with improved overall survival in high-grade serous ovarian carcinoma: an Ovarian Tumor Tissue Analysis Consortium Study

Author

Weir, A, Kang, E-Y, Meagher, NS, Nelson, GS, Ghatage, P, Lee, C-H, Riggan, MJ, Gentry-Maharaj, A, Ryan, A, Singh, N, Widschwendter, M, Alsop, J, Anglesio, MS, Beckmann, MW, Berger, J, Bisinotto, C, Boros, J, Brand, AH, Brenton, JD, Brooks-Wilson, A, Carney, ME, Cunningham, JM, Cushing-Haugen, KL, Cybulski, C, Elishaev, E, Erber, R, Fereday, S, Fischer, A, Paz-Ares, L, Gayarre, J, Gilks, BC, Grube, M, Harnett, PR, Harris, HR, Hartmann, A, Hein, A, Hendley, J, Hernandez, BY, Heublein, S, Huang, Y, Huzarski, T, Jakubowska, A, Jimenez-Linan, M, Kennedy, CJ, Kommoss, FKF, Koziak, JM, Kraemer, B, Le, ND, Lesnock, J, Lester, J, Lubinski, J, Menkiszak, J, Ney, B, Olawaiye, A, Orsulic, S, Osorio, A, Robles-Diaz, L, Ruebner, M, Shah, M, Sharma, R, Shvetsov, YB, Steed, H, Talhouk, A, Taylor, SE, Traficante, N, Vierkant, RA, Wang, C, Wilkens, LR, Winham, SJ, Benitez, J, Berchuck, A, Bowtell, DD, Candido dos Reis, FJ, Cook, LS, DeFazio, A, Doherty, JA, Fasching, PA, Garcia, MJ, Goode, EL, Goodman, MT, Gronwald, J, Huntsman, DG, Karlan, BY, Kommoss, S, Modugno, F, Schildkraut, JM, Sinn, H-P, Staebler, A, Kelemen, LE, Ford, CE, Menon, U, Pharoah, PDP, Koebel, M, Ramus, SJ, Bowtell, D, Brand, A, Harnett, P, Weir, A, Kang, E-Y, Meagher, NS, Nelson, GS, Ghatage, P, Lee, C-H, Riggan, MJ, Gentry-Maharaj, A, Ryan, A, Singh, N, Widschwendter, M, Alsop, J, Anglesio, MS, Beckmann, MW, Berger, J, Bisinotto, C, Boros, J, Brand, AH, Brenton, JD, Brooks-Wilson, A, Carney, ME, Cunningham, JM, Cushing-Haugen, KL, Cybulski, C, Elishaev, E, Erber, R, Fereday, S, Fischer, A, Paz-Ares, L, Gayarre, J, Gilks, BC, Grube, M, Harnett, PR, Harris, HR, Hartmann, A, Hein, A, Hendley, J, Hernandez, BY, Heublein, S, Huang, Y, Huzarski, T, Jakubowska, A, Jimenez-Linan, M, Kennedy, CJ, Kommoss, FKF, Koziak, JM, Kraemer, B, Le, ND, Lesnock, J, Lester, J, Lubinski, J, Menkiszak, J, Ney, B, Olawaiye, A, Orsulic, S, Osorio, A, Robles-Diaz, L, Ruebner, M, Shah, M, Sharma, R, Shvetsov, YB, Steed, H, Talhouk, A, Taylor, SE, Traficante, N, Vierkant, RA, Wang, C, Wilkens, LR, Winham, SJ, Benitez, J, Berchuck, A, Bowtell, DD, Candido dos Reis, FJ, Cook, LS, DeFazio, A, Doherty, JA, Fasching, PA, Garcia, MJ, Goode, EL, Goodman, MT, Gronwald, J, Huntsman, DG, Karlan, BY, Kommoss, S, Modugno, F, Schildkraut, JM, Sinn, H-P, Staebler, A, Kelemen, LE, Ford, CE, Menon, U, Pharoah, PDP, Koebel, M, Ramus, SJ, Bowtell, D, Brand, A, and Harnett, P

Abstract

BACKGROUND: Recently, we showed a >60% difference in 5-year survival for patients with tubo-ovarian high-grade serous carcinoma (HGSC) when stratified by a 101-gene mRNA expression prognostic signature. Given the varied patient outcomes, this study aimed to translate prognostic mRNA markers into protein expression assays by immunohistochemistry and validate their survival association in HGSC. METHODS: Two prognostic genes, FOXJ1 and GMNN, were selected based on high-quality antibodies, correlation with protein expression and variation in immunohistochemical scores in a preliminary cohort (n = 134 and n = 80, respectively). Six thousand four hundred and thirty-four (FOXJ1) and 5470 (GMNN) formalin-fixed, paraffin-embedded ovarian neoplasms (4634 and 4185 HGSC, respectively) represented on tissue microarrays from the Ovarian Tumor Tissue Analysis consortium underwent immunohistochemical staining and scoring, then univariate and multivariate survival analysis. RESULTS: Consistent with mRNA, FOXJ1 protein expression exhibited a linear, increasing association with improved overall survival in HGSC patients. Women with >50% expression had the most favourable outcomes (HR = 0.78, 95% CI 0.67-0.91, p < 0.0001). GMNN protein expression was not significantly associated with overall HSGC patient survival. However, HGSCs with >35% GMNN expression showed a trend for better outcomes, though this was not significant. CONCLUSION: We provide foundational evidence for the prognostic value of FOXJ1 in HGSC, validating the prior mRNA-based prognostic association by immunohistochemistry.

Published
2023

14. p53 and ovarian carcinoma survival: an Ovarian Tumor Tissue Analysis consortium study

Author

Kobel, M, Kang, E-Y, Weir, A, Rambau, PF, Lee, C-H, Nelson, GS, Ghatage, P, Meagher, NS, Riggan, MJ, Alsop, J, Anglesio, MS, Beckmann, MW, Bisinotto, C, Boisen, M, Boros, J, Brand, AH, Brooks-Wilson, A, Carney, ME, Coulson, P, Courtney-Brooks, M, Cushing-Haugen, KL, Cybulski, C, Deen, S, El-Bahrawy, MA, Elishaev, E, Erber, R, Fereday, S, Fischer, A, Gayther, SA, Barquin-Garcia, A, Gentry-Maharaj, A, Gilks, CB, Gronwald, H, Grube, M, Harnett, PR, Harris, HR, Hartkopf, AD, Hartmann, A, Hein, A, Hendley, J, Hernandez, BY, Huang, Y, Jakubowska, A, Jimenez-Linan, M, Jones, ME, Kennedy, CJ, Kluz, T, Koziak, JM, Lesnock, J, Lester, J, Lubinski, J, Longacre, TA, Lycke, M, Mateoiu, C, McCauley, BM, McGuire, V, Ney, B, Olawaiye, A, Orsulic, S, Osorio, A, Paz-Ares, L, Ramon Y Cajal, T, Rothstein, JH, Ruebner, M, Schoemaker, MJ, Shah, M, Sharma, R, Sherman, ME, Shvetsov, YB, Singh, N, Steed, H, Storr, SJ, Talhouk, A, Traficante, N, Wang, C, Whittemore, AS, Widschwendter, M, Wilkens, LR, Winham, SJ, Benitez, J, Berchuck, A, Bowtell, DD, Candido dos Reis, FJ, Campbell, I, Cook, LS, DeFazio, A, Doherty, JA, Fasching, PA, Fortner, RT, Garcia, MJ, Goodman, MT, Goode, EL, Gronwald, J, Huntsman, DG, Karlan, BY, Kelemen, LE, Kommoss, S, Le, ND, Martin, SG, Menon, U, Modugno, F, Pharoah, PDP, Schildkraut, JM, Sieh, W, Staebler, A, Sundfeldt, K, Swerdlow, AJ, Ramus, SJ, Brenton, JD, Kobel, M, Kang, E-Y, Weir, A, Rambau, PF, Lee, C-H, Nelson, GS, Ghatage, P, Meagher, NS, Riggan, MJ, Alsop, J, Anglesio, MS, Beckmann, MW, Bisinotto, C, Boisen, M, Boros, J, Brand, AH, Brooks-Wilson, A, Carney, ME, Coulson, P, Courtney-Brooks, M, Cushing-Haugen, KL, Cybulski, C, Deen, S, El-Bahrawy, MA, Elishaev, E, Erber, R, Fereday, S, Fischer, A, Gayther, SA, Barquin-Garcia, A, Gentry-Maharaj, A, Gilks, CB, Gronwald, H, Grube, M, Harnett, PR, Harris, HR, Hartkopf, AD, Hartmann, A, Hein, A, Hendley, J, Hernandez, BY, Huang, Y, Jakubowska, A, Jimenez-Linan, M, Jones, ME, Kennedy, CJ, Kluz, T, Koziak, JM, Lesnock, J, Lester, J, Lubinski, J, Longacre, TA, Lycke, M, Mateoiu, C, McCauley, BM, McGuire, V, Ney, B, Olawaiye, A, Orsulic, S, Osorio, A, Paz-Ares, L, Ramon Y Cajal, T, Rothstein, JH, Ruebner, M, Schoemaker, MJ, Shah, M, Sharma, R, Sherman, ME, Shvetsov, YB, Singh, N, Steed, H, Storr, SJ, Talhouk, A, Traficante, N, Wang, C, Whittemore, AS, Widschwendter, M, Wilkens, LR, Winham, SJ, Benitez, J, Berchuck, A, Bowtell, DD, Candido dos Reis, FJ, Campbell, I, Cook, LS, DeFazio, A, Doherty, JA, Fasching, PA, Fortner, RT, Garcia, MJ, Goodman, MT, Goode, EL, Gronwald, J, Huntsman, DG, Karlan, BY, Kelemen, LE, Kommoss, S, Le, ND, Martin, SG, Menon, U, Modugno, F, Pharoah, PDP, Schildkraut, JM, Sieh, W, Staebler, A, Sundfeldt, K, Swerdlow, AJ, Ramus, SJ, and Brenton, JD

Abstract

Our objective was to test whether p53 expression status is associated with survival for women diagnosed with the most common ovarian carcinoma histotypes (high-grade serous carcinoma [HGSC], endometrioid carcinoma [EC], and clear cell carcinoma [CCC]) using a large multi-institutional cohort from the Ovarian Tumor Tissue Analysis (OTTA) consortium. p53 expression was assessed on 6,678 cases represented on tissue microarrays from 25 participating OTTA study sites using a previously validated immunohistochemical (IHC) assay as a surrogate for the presence and functional effect of TP53 mutations. Three abnormal expression patterns (overexpression, complete absence, and cytoplasmic) and the normal (wild type) pattern were recorded. Survival analyses were performed by histotype. The frequency of abnormal p53 expression was 93.4% (4,630/4,957) in HGSC compared to 11.9% (116/973) in EC and 11.5% (86/748) in CCC. In HGSC, there were no differences in overall survival across the abnormal p53 expression patterns. However, in EC and CCC, abnormal p53 expression was associated with an increased risk of death for women diagnosed with EC in multivariate analysis compared to normal p53 as the reference (hazard ratio [HR] = 2.18, 95% confidence interval [CI] 1.36-3.47, p = 0.0011) and with CCC (HR = 1.57, 95% CI 1.11-2.22, p = 0.012). Abnormal p53 was also associated with shorter overall survival in The International Federation of Gynecology and Obstetrics stage I/II EC and CCC. Our study provides further evidence that functional groups of TP53 mutations assessed by abnormal surrogate p53 IHC patterns are not associated with survival in HGSC. In contrast, we validate that abnormal p53 IHC is a strong independent prognostic marker for EC and demonstrate for the first time an independent prognostic association of abnormal p53 IHC with overall survival in patients with CCC.

Published
2023

15. Arduinos in the wild:a novel, low-cost sensor network for high-resolution microclimate monitoring in remote ecosystems

Author

Mühlbauer, L. K. (Lina K.), Zavattoni, G. (Giorgio), Virtanen, R. (Risto), Grube, M. (Martin), Weber, B. (Bettina), Clark, A. T. (Adam Thomas), Mühlbauer, L. K. (Lina K.), Zavattoni, G. (Giorgio), Virtanen, R. (Risto), Grube, M. (Martin), Weber, B. (Bettina), and Clark, A. T. (Adam Thomas)

Abstract

1. The importance of microclimate conditions is becoming increasingly recognised in ecological research, especially as they can differ widely from macro- and mesoclimate. Effective measurement of microclimate variability in heterogeneous field conditions requires measurements from a large number of sensors, ideally sampling across both small and large scales, which necessitates the development of cost-effective sensor networks. 2. Here, we develop an environmental microcontroller (EMU) sensor network for measuring soil moisture and temperature with high spatiotemporal coverage. The system can easily be implemented in larger or smaller setups, though our study consisted of 40 plots distributed across 4 sites in northern Lapland. Using 40 EMUs, each equipped with 10 soil temperature and 10 soil moisture sensors, we collected roughly 3.5 million unique soil temperature and moisture records over the course of about 2 months. We then compared these measurements to those from commercial temperature sensors (iButtons) and TDR soil moisture probes. 3. We show that our sensor network is able to successfully characterise microclimate variation at the site, plot and within-plot scales with high accuracy and good reliability. Moreover, even including development costs, the total price per EMU unit was less than €100, yielding a much cheaper and higher resolution system than is currently available from commercial producers. For both temperature and soil moisture, we found a strong relationship between the sensor network measurement and those obtained from commercial systems. Roughly 10% of the overall spatial variation in temperature and moisture occurred within plots—that is. over the scale of 25–50 cm. 4. Our results show that accurate measurements of microclimate soil temperature and soil moisture can be obtained using low-cost sensor networks. We also show that microclimate variability at small scales can make up a considerable fraction of total environmental variab

Published
2023

16. Improved preoperative risk stratification in endometrial carcinoma patients: external validation of the ENDORISK Bayesian network model in a large population-based case series.

Author

Grube, M., Reijnen, C., Lucas, P.J.F., Kommoss, F., Kommoss, F.K.F., Brucker, S.Y., Walter, C.B., Oberlechner, E., Krämer, Bernhard, Andress, J., Neis, F., Staebler, A., Pijnenborg, J.M.A., Kommoss, S., Grube, M., Reijnen, C., Lucas, P.J.F., Kommoss, F., Kommoss, F.K.F., Brucker, S.Y., Walter, C.B., Oberlechner, E., Krämer, Bernhard, Andress, J., Neis, F., Staebler, A., Pijnenborg, J.M.A., and Kommoss, S.

Abstract

01 juli 2023, Item does not contain fulltext, PURPOSE: Preoperative risk stratification of newly diagnosed endometrial carcinoma (EC) patients has been hindered by only moderate prediction performance for many years. Recently ENDORISK, a Bayesian network model, showed high predictive performance. It was the aim of this study to validate ENDORISK by applying the model to a population-based case series of EC patients. METHODS: ENDORISK was applied to a retrospective cohort of women surgically treated for EC from 2003 to 2013. Prediction accuracy for LNM as well as 5-year DSS was investigated. The model's overall performance was quantified by the Brier score, discriminative performance by area under the curve (AUC). RESULTS: A complete dataset was evaluable from 247 patients. 78.1% cases were endometrioid histotype. The majority of patients (n = 156;63.2%) had stage IA disease. Overall, positive lymph nodes were found in 20 (8.1%) patients. Using ENDORISK predicted probabilities, most (n = 156;63.2%) patients have been assigned to low or very low risk group with a false-negative rate of 0.6%. AUC for LNM prediction was 0.851 [95% confidence interval (CI) 0.761-0.941] with a Brier score of 0.06. For 5-year DSS the AUC was 0.698 (95% CI 0.595-0.800) as Brier score has been calculated 0.09. CONCLUSIONS: We were able to successfully validate ENDORISK for prediction of LNM and 5-year DSS. Next steps will now have to focus on ENDORISK performance in daily clinical practice. In addition, incorporating TCGA-derived molecular subtypes will be of key importance for future extended use. This study may support further promoting of data-based decision-making tools for personalized treatment of EC.

Published
2023

24. L1-CAM in mucinous ovarian carcinomas and borderline tumors – impact on tumor recurrence and potential role in tumor progression

Author

Wiedenhöfer, R, additional, Schmoeckel, E, additional, Grube, M, additional, Sulyok, M, additional, Pasternak, I, additional, Beschorner, C, additional, Greif, K, additional, Wallwiener, D, additional, Brucker, S, additional, Mayr, D, additional, Kommoss, S, additional, Fend, F, additional, Staebler, A, additional, and Fischer, AK, additional

Published
2022
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25. Depression and anxiety in women with malignant ovarian germ cell (MOGCT) and sex cord stromal tumors (SCST): an analysis of the AGO-CORSETT database

Author

Bossart, M., primary, Plett, H., additional, Krämer, B., additional, Braicu, E., additional, Czogalla, B., additional, Klar, M., additional, Singer, S., additional, Mayr, D., additional, Staebler, A., additional, du Bois, A., additional, Kommoss, S., additional, Link, T., additional, Burges, A., additional, Heitz, F., additional, Grube, M., additional, Trillsch, F., additional, Harter, P., additional, Wimberger, P., additional, Buderath, P., additional, and Hasenburg, A., additional

Published
2022
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26. Fusariumand Allied Fusarioid Taxa (FUSA). 1

Author

Crous, P.W., primary, Sandoval-Denis, M., additional, Costa, M.M., additional, Groenewald, J.Z., additional, van Iperen, A.L., additional, Starink-Willemse, M., additional, Hernández-Restrepo, M., additional, Kandemir, H., additional, Ulaszewski, B., additional, de Boer, W., additional, Abdel-Azeem, A.M., additional, Abdollahzadeh, J., additional, Akulov, A., additional, Bakhshi, M., additional, Bezerra, J.D.P., additional, Bhunjun, C.S., additional, Câmara, M.P.S., additional, Chaverri, P., additional, Vieira, W.A.S., additional, Decock, C.A., additional, Gaya, E., additional, Gené, J., additional, Guarro, J., additional, Gramaje, D., additional, Grube, M., additional, Gupta, V.K., additional, Guarnaccia, V., additional, Hill, R., additional, Hirooka, Y., additional, Hyde, K.D., additional, Jayawardena, R.S., additional, Jeewon, R., additional, Jurjević, Ž., additional, Korsten, L., additional, Lamprecht, S.C., additional, Lombard, L., additional, Maharachchikumbura, S.S.N., additional, Polizzi, G., additional, Rajeshkumar, K.C., additional, Salgado-Salazar, C., additional, Shang, Q.J., additional, Shivas, R.G., additional, Summerbell, R.C., additional, Sun, G.Y., additional, Swart, W.J., additional, Tan, Y.P., additional, Vizzini, A., additional, Xia, J.W., additional, Zare, R., additional, González, C.D., additional, Iturriaga, T., additional, Savary, O., additional, Coton, M., additional, Coton, E., additional, Jany, J.L., additional, Liu, C., additional, Zeng, Z.Q., additional, Zhuang, W.Y., additional, Yu, Z.H., additional, and Thines, M., additional

Published
2022
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27. Fusarium and allied fusarioid taxa (FUSA). 1

Author

Crous, P.W., Sandoval-Denis, M., Groenewald, J.Z., Costa, M.M., van Iperen, A.L., Starink-Willemse, M., Hernández-Restrepo, M., Kandemir, H., Ulaszewski, B., de Boer, W., Abdel-Azeem, A.M., Abdollahzadeh, J., Akulov, A., Bakhshi, M., Bezerra, J.D.P., Bhunjun, C.S., Câmara, M.P.S., Chaverri, P., Vieira, W.A.S., Decock, C.A., Gaya, E., Gené, J., Guarro, J., Gramaje, D., Grube, M., Gupta, V.K., Guarnaccia, V., Hill, R., Hirooka, Y., Hyde, K.D., Jayawardena, R.S., Jeewon, R., Jurjević, Ž, Korsten, L., Lamprecht, S.C., Lombard, L., Maharachchikumbura, S.S.N., Polizzi, G., Rajeshkumar, K.C., Salgado-Salazar, C., Shang, Q.-J., Shivas, R.G., Summerbell, R.C., Sun, G.Y., Swart, W.J., Tan, Y.P., Vizzini, A., Xia, J.W., Zare, R., González, C.D., Iturriaga, T., Savary, O., Coton, M., Coton, E., Jany, J.-L., Liu, C., Zeng, Z.-Q., Zhuang, W.-Y., Yu, Z.-H., Thines, M., Crous, P.W., Sandoval-Denis, M., Groenewald, J.Z., Costa, M.M., van Iperen, A.L., Starink-Willemse, M., Hernández-Restrepo, M., Kandemir, H., Ulaszewski, B., de Boer, W., Abdel-Azeem, A.M., Abdollahzadeh, J., Akulov, A., Bakhshi, M., Bezerra, J.D.P., Bhunjun, C.S., Câmara, M.P.S., Chaverri, P., Vieira, W.A.S., Decock, C.A., Gaya, E., Gené, J., Guarro, J., Gramaje, D., Grube, M., Gupta, V.K., Guarnaccia, V., Hill, R., Hirooka, Y., Hyde, K.D., Jayawardena, R.S., Jeewon, R., Jurjević, Ž, Korsten, L., Lamprecht, S.C., Lombard, L., Maharachchikumbura, S.S.N., Polizzi, G., Rajeshkumar, K.C., Salgado-Salazar, C., Shang, Q.-J., Shivas, R.G., Summerbell, R.C., Sun, G.Y., Swart, W.J., Tan, Y.P., Vizzini, A., Xia, J.W., Zare, R., González, C.D., Iturriaga, T., Savary, O., Coton, M., Coton, E., Jany, J.-L., Liu, C., Zeng, Z.-Q., Zhuang, W.-Y., Yu, Z.-H., and Thines, M.

Abstract

Seven Fusarium species complexes are treated, namely F. aywerte species complex (FASC) (two species), F. buharicum species complex (FBSC) (five species), F. burgessii species complex (FBURSC) (three species), F. camptoceras species complex (FCAMSC) (three species), F. chlamydosporum species complex (FCSC) (eight species), F. citricola species complex (FCCSC) (five species) and the F. concolor species complex (FCOSC) (four species). New species include Fusicolla elongata from soil (Zimbabwe), and Neocosmospora geoasparagicola from soil associated with Asparagus officinalis (Netherlands). New combinations include Neocosmospora akasia, N. awan, N. drepaniformis, N. duplosperma, N. geoasparagicola, N. mekan, N. papillata, N. variasi and N. warna. Newly validated taxa include Longinectria gen. nov., L. lagenoides, L. verticilliforme, Fusicolla gigas and Fusicolla guangxiensis. Furthermore, Fusarium rosicola is reduced to synonymy under N. brevis. Finally, the genome assemblies of Fusicolla betae (CBS 175.32), Microcera coccophila (CBS 310.34), Rectifusarium robinianum (CBS 430.91), Rugonectria rugulosa (CBS 126565), and Thelonectria blattea (CBS 952.68) are also announced here.

Published
2022

28. Gene-Expression Profiling of Mucinous Ovarian Tumors and Comparison with Upper and Lower Gastrointestinal Tumors Identifies Markers Associated with Adverse Outcomes

Author

Meagher, NS, Gorringe, KL, Wakefield, M, Bolithon, A, Pang, CNI, Chiu, DS, Anglesio, MS, Mallitt, K-A, Doherty, JA, Harris, HR, Schildkraut, JM, Berchuck, A, Cushing-Haugen, KL, Chezar, K, Chou, A, Tan, A, Alsop, J, Barlow, E, Beckmann, MW, Boros, J, Bowtell, DDL, Brand, AH, Brenton, JD, Campbell, I, Cheasley, D, Cohen, J, Cybulski, C, Elishaev, E, Erber, R, Farrell, R, Fischer, A, Fu, Z, Gilks, B, Gill, AJ, Gourley, C, Grube, M, Harnett, PR, Hartmann, A, Hettiaratchi, A, Hogdall, CK, Huzarski, T, Jakubowska, A, Jimenez-Linan, M, Kennedy, CJ, Kim, B-G, Kim, J-W, Kim, J-H, Klett, K, Koziak, JM, Lai, T, Laslavic, A, Lester, J, Leung, Y, Li, N, Liauw, W, Lim, BWX, Linder, A, Lubinski, J, Mahale, S, Mateoiu, C, McInerny, S, Menkiszak, J, Minoo, P, Mittelstadt, S, Morris, D, Orsulic, S, Park, S-Y, Pearce, CL, Pearson, J, Pike, MC, Quinn, CM, Mohan, GR, Rao, J, Riggan, MJ, Ruebner, M, Salfinger, S, Scott, CL, Shah, M, Steed, H, Stewart, CJR, Subramanian, D, Sung, S, Tang, K, Timpson, P, Ward, RL, Wiedenhoefer, R, Thorne, H, Cohen, PA, Crowe, P, Fasching, PA, Gronwald, J, Hawkins, NJ, Hogdall, E, Huntsman, DG, James, PA, Karlan, BY, Kelemen, LE, Kommoss, S, Konecny, GE, Modugno, F, Park, SK, Staebler, A, Sundfeldt, K, Wu, AH, Talhouk, A, Pharoah, PDP, Anderson, L, DeFazio, A, Kobel, M, Friedlander, ML, Ramus, SJ, Meagher, NS, Gorringe, KL, Wakefield, M, Bolithon, A, Pang, CNI, Chiu, DS, Anglesio, MS, Mallitt, K-A, Doherty, JA, Harris, HR, Schildkraut, JM, Berchuck, A, Cushing-Haugen, KL, Chezar, K, Chou, A, Tan, A, Alsop, J, Barlow, E, Beckmann, MW, Boros, J, Bowtell, DDL, Brand, AH, Brenton, JD, Campbell, I, Cheasley, D, Cohen, J, Cybulski, C, Elishaev, E, Erber, R, Farrell, R, Fischer, A, Fu, Z, Gilks, B, Gill, AJ, Gourley, C, Grube, M, Harnett, PR, Hartmann, A, Hettiaratchi, A, Hogdall, CK, Huzarski, T, Jakubowska, A, Jimenez-Linan, M, Kennedy, CJ, Kim, B-G, Kim, J-W, Kim, J-H, Klett, K, Koziak, JM, Lai, T, Laslavic, A, Lester, J, Leung, Y, Li, N, Liauw, W, Lim, BWX, Linder, A, Lubinski, J, Mahale, S, Mateoiu, C, McInerny, S, Menkiszak, J, Minoo, P, Mittelstadt, S, Morris, D, Orsulic, S, Park, S-Y, Pearce, CL, Pearson, J, Pike, MC, Quinn, CM, Mohan, GR, Rao, J, Riggan, MJ, Ruebner, M, Salfinger, S, Scott, CL, Shah, M, Steed, H, Stewart, CJR, Subramanian, D, Sung, S, Tang, K, Timpson, P, Ward, RL, Wiedenhoefer, R, Thorne, H, Cohen, PA, Crowe, P, Fasching, PA, Gronwald, J, Hawkins, NJ, Hogdall, E, Huntsman, DG, James, PA, Karlan, BY, Kelemen, LE, Kommoss, S, Konecny, GE, Modugno, F, Park, SK, Staebler, A, Sundfeldt, K, Wu, AH, Talhouk, A, Pharoah, PDP, Anderson, L, DeFazio, A, Kobel, M, Friedlander, ML, and Ramus, SJ

Abstract

PURPOSE: Advanced-stage mucinous ovarian carcinoma (MOC) has poor chemotherapy response and prognosis and lacks biomarkers to aid stage I adjuvant treatment. Differentiating primary MOC from gastrointestinal (GI) metastases to the ovary is also challenging due to phenotypic similarities. Clinicopathologic and gene-expression data were analyzed to identify prognostic and diagnostic features. EXPERIMENTAL DESIGN: Discovery analyses selected 19 genes with prognostic/diagnostic potential. Validation was performed through the Ovarian Tumor Tissue Analysis consortium and GI cancer biobanks comprising 604 patients with MOC (n = 333), mucinous borderline ovarian tumors (MBOT, n = 151), and upper GI (n = 65) and lower GI tumors (n = 55). RESULTS: Infiltrative pattern of invasion was associated with decreased overall survival (OS) within 2 years from diagnosis, compared with expansile pattern in stage I MOC [hazard ratio (HR), 2.77; 95% confidence interval (CI), 1.04-7.41, P = 0.042]. Increased expression of THBS2 and TAGLN was associated with shorter OS in MOC patients (HR, 1.25; 95% CI, 1.04-1.51, P = 0.016) and (HR, 1.21; 95% CI, 1.01-1.45, P = 0.043), respectively. ERBB2 (HER2) amplification or high mRNA expression was evident in 64 of 243 (26%) of MOCs, but only 8 of 243 (3%) were also infiltrative (4/39, 10%) or stage III/IV (4/31, 13%). CONCLUSIONS: An infiltrative growth pattern infers poor prognosis within 2 years from diagnosis and may help select stage I patients for adjuvant therapy. High expression of THBS2 and TAGLN in MOC confers an adverse prognosis and is upregulated in the infiltrative subtype, which warrants further investigation. Anti-HER2 therapy should be investigated in a subset of patients. MOC samples clustered with upper GI, yet markers to differentiate these entities remain elusive, suggesting similar underlying biology and shared treatment strategies.

Published
2022

29. Validated biomarker assays confirm that ARID1A loss is confounded with MMR deficiency, CD8(+) TIL infiltration, and provides no independent prognostic value in endometriosis-associated ovarian carcinomas

Author

Heinze, K, Nazeran, TM, Lee, S, Kramer, P, Cairns, ES, Chiu, DS, Leung, SCY, Kang, EY, Meagher, NS, Kennedy, CJ, Boros, J, Kommoss, F, Vollert, H-W, Heitze, F, du Bois, A, Harter, P, Grube, M, Kraemer, B, Staebler, A, Kommoss, FKF, Heublein, S, Sinn, H-P, Singh, N, Laslavic, A, Elishaev, E, Olawaiye, A, Moysich, K, Modugno, F, Sharma, R, Brand, AH, Harnett, PR, DeFazio, A, Fortner, RT, Lubinski, J, Lener, M, Toloczko-Grabarek, A, Cybulski, C, Gronwald, H, Gronwald, J, Coulson, P, El-Bahrawy, MA, Jones, ME, Schoemaker, MJ, Swerdlow, AJ, Gorringe, KL, Campbell, I, Cook, L, Gayther, SA, Carney, ME, Shvetsov, YB, Hernandez, BY, Wilkens, LR, Goodman, MT, Mateoiu, C, Linder, A, Sundfeldt, K, Kelemen, LE, Gentry-Maharaj, A, Widschwendter, M, Menon, U, Bolton, KL, Alsop, J, Shah, M, Jimenez-Linan, M, Pharoah, PDP, Brenton, JD, Cushing-Haugen, KL, Harris, HR, Doherty, JA, Gilks, B, Ghatage, P, Huntsman, DG, Nelson, GS, Tinker, A, Lee, C-H, Goode, EL, Nelson, BH, Ramus, SJ, Kommoss, S, Talhouk, A, Kobel, M, Anglesio, MS, Heinze, K, Nazeran, TM, Lee, S, Kramer, P, Cairns, ES, Chiu, DS, Leung, SCY, Kang, EY, Meagher, NS, Kennedy, CJ, Boros, J, Kommoss, F, Vollert, H-W, Heitze, F, du Bois, A, Harter, P, Grube, M, Kraemer, B, Staebler, A, Kommoss, FKF, Heublein, S, Sinn, H-P, Singh, N, Laslavic, A, Elishaev, E, Olawaiye, A, Moysich, K, Modugno, F, Sharma, R, Brand, AH, Harnett, PR, DeFazio, A, Fortner, RT, Lubinski, J, Lener, M, Toloczko-Grabarek, A, Cybulski, C, Gronwald, H, Gronwald, J, Coulson, P, El-Bahrawy, MA, Jones, ME, Schoemaker, MJ, Swerdlow, AJ, Gorringe, KL, Campbell, I, Cook, L, Gayther, SA, Carney, ME, Shvetsov, YB, Hernandez, BY, Wilkens, LR, Goodman, MT, Mateoiu, C, Linder, A, Sundfeldt, K, Kelemen, LE, Gentry-Maharaj, A, Widschwendter, M, Menon, U, Bolton, KL, Alsop, J, Shah, M, Jimenez-Linan, M, Pharoah, PDP, Brenton, JD, Cushing-Haugen, KL, Harris, HR, Doherty, JA, Gilks, B, Ghatage, P, Huntsman, DG, Nelson, GS, Tinker, A, Lee, C-H, Goode, EL, Nelson, BH, Ramus, SJ, Kommoss, S, Talhouk, A, Kobel, M, and Anglesio, MS

Published
2022

30. Fusarium and allied fusarioid taxa (FUSA). 1

Author

Universitat Rovira i Virgili, Crous PW; Sandoval-Denis M; Costa MM; Groenewald JZ; van Iperen AL; Starink-Willemse M; Hernandez-Restrepo M; Kandemir H; Ulaszewski B; de Boer W; Abdel-Azeem AM; Abdollahzadeh J; Akulov A; Bakhshi M; Bezerra JDP; Bhunjun CS; Camara MPS; Chaverri P; Vieira WAS; Decock CA; Gaya E; Gene J; Guarro J; Gramaje D; Grube M; Gupta VK; Guarnaccia V; Hill R; Hirooka Y; Hyde KD; Jayawardena RS; Jeewon R; Jurjevic Z; Korsten L; Lamprecht SC; Lombard L; Maharachchikumbura SSN; Polizzi G; Rajeshkumar KC; Salgado-Salazar C; Shang QJ; Shivas RG; Summerbell RC; Sun GY; Swart WJ; Tan YP; Vizzini A; Xia JW; Zare R; Gonzalez CD; Iturriaga T; Savary O; Coton M; Coton E; Jany JL; Liu C; Zeng ZQ; Zhuang WY; Yu ZH; Thines M, Universitat Rovira i Virgili, and Crous PW; Sandoval-Denis M; Costa MM; Groenewald JZ; van Iperen AL; Starink-Willemse M; Hernandez-Restrepo M; Kandemir H; Ulaszewski B; de Boer W; Abdel-Azeem AM; Abdollahzadeh J; Akulov A; Bakhshi M; Bezerra JDP; Bhunjun CS; Camara MPS; Chaverri P; Vieira WAS; Decock CA; Gaya E; Gene J; Guarro J; Gramaje D; Grube M; Gupta VK; Guarnaccia V; Hill R; Hirooka Y; Hyde KD; Jayawardena RS; Jeewon R; Jurjevic Z; Korsten L; Lamprecht SC; Lombard L; Maharachchikumbura SSN; Polizzi G; Rajeshkumar KC; Salgado-Salazar C; Shang QJ; Shivas RG; Summerbell RC; Sun GY; Swart WJ; Tan YP; Vizzini A; Xia JW; Zare R; Gonzalez CD; Iturriaga T; Savary O; Coton M; Coton E; Jany JL; Liu C; Zeng ZQ; Zhuang WY; Yu ZH; Thines M

Abstract

Seven Fusarium species complexes are treated, namely F. aywerte species complex (FASC) (two species), F. buharicum species complex (FBSC) (five species), F. burgessii species complex (FBURSC) (three species), F. camptoceras species complex (FCAMSC) (three species), F. chlamydosporum species complex (FCSC) (eight species), F. citricola species complex (FCCSC) (five species) and the F. concolor species complex (FCOSC) (four species). New species include Fusicolla elongata from soil (Zimbabwe), and Neocosmospora geoasparagicola from soil associated with Asparagus officinalis (Netherlands). New combinations include Neocosmospora akasia, N. awan, N. drepaniformis, N. duplosperma, N. geoasparagicola, N. mekan, N. papillata, N. variasi and N. warna. Newly validated taxa include Longinectria gen. nov., L. lagenoides, L. verticilliforme, Fusicolla gigas and Fusicolla guangxiensis. Furthermore, Fusarium rosicola is reduced to synonymy under N. brevis. Finally, the genome assemblies of Fusarium secorum (CBS 175.32), Microcera coccophila (CBS 310.34), Rectifusarium robinianum (CBS 430.91), Rugonectria rugulosa (CBS 126565), and Thelonectria blattea (CBS 952.68) are also announced here

Published
2022

38. 113 Improved preoperative risk stratification in endometrial cancer: External validation of the ENDORISK network model in a population-based case series

Author

Grube, M, primary, Reijnen, C, additional, Lucas, PJ, additional, Kommoss, F, additional, Kommoss, FK, additional, Brucker, SY, additional, Oberlechner, E, additional, Krämer, B, additional, Andress, J, additional, Neis, F, additional, Staebler, A, additional, Pijnenborg, JM, additional, and Kommoss, S, additional

Published
2021
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39. 382 Molecular classification of endometrial carcinoma substantially changing risk-assessment: Results from a european multicentre initiative

Author

Kommoss, S, primary, Grube, M, additional, Knoll, K, additional, Lum, A, additional, Brambs, C, additional, Pauly, N, additional, Kommoss, F, additional, Heublein, S, additional, Battista, M, additional, Mittelstadt, S, additional, Rohner, A, additional, Preaetorius, T, additional, Hasenburg, A, additional, Ataseven, B, additional, Talhouk, A, additional, Diebold, J, additional, Zeimet, AG, additional, Staebler, A, additional, and Mcalpine, J, additional

Published
2021
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40. 576 Ovarian carcinoma precursor lesions in a walk-in series of opportunistic and prophylactic salpingectomies at the Tuebingen women’s hospital

Author

Rohner, A, primary, Ney, B, additional, Grube, M, additional, Keim, J, additional, Bösmüller, H, additional, Fischer, A, additional, Greif, K, additional, Krämer, B, additional, Hoffmann, S, additional, Neis, F, additional, Andress, J, additional, Fend, F, additional, Brucker, SY, additional, Staebler, A, additional, and Kommoss, S, additional

Published
2021
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46. Fusarium: more than a node or a foot-shaped basal cell

Author

Crous, P. W., Lombard, L., Sandoval-Denis, M., Seifert, K. A., Schroers, H. J., Chaverri, P., Gené, J., Guarro, J., Hirooka, Y., Bensch, K., Kema, G. H.J., Lamprecht, S. C., Cai, L., Rossman, A. Y., Stadler, M., Summerbell, R. C., Taylor, J. W., Ploch, S., Visagie, C. M., Yilmaz, N., Frisvad, J. C., Abdel-Azeem, A. M., Abdollahzadeh, J., Abdolrasouli, A., Akulov, A., Alberts, J. F., Araújo, J. P.M., Ariyawansa, H. A., Bakhshi, M., Bendiksby, M., Ben Hadj Amor, A., Bezerra, J. D.P., Boekhout, T., Câmara, M. P.S., Carbia, M., Cardinali, G., Castañeda-Ruiz, R. F., Celis, A., Chaturvedi, V., Collemare, J., Croll, D., Damm, U., Decock, C. A., de Vries, R. P., Ezekiel, C. N., Fan, X. L., Fernández, N. B., Gaya, E., González, C. D., Gramaje, D., Groenewald, J. Z., Grube, M., Guevara-Suarez, M., Gupta, V. K., Guarnaccia, V., Haddaji, A., Hagen, F., Haelewaters, D., Hansen, K., Hashimoto, A., Hernández-Restrepo, M., Houbraken, J., Hubka, V., Hyde, K. D., Iturriaga, T., Jeewon, R., Johnston, P. R., Jurjević, Karalti, Korsten, L., Kuramae, E. E., Kušan, I., Labuda, R., Lawrence, D. P., Lee, H. B., Lechat, C., Li, H. Y., Litovka, Y. A., Maharachchikumbura, S. S.N., Marin-Felix, Y., Matio Kemkuignou, B., Matočec, N., McTaggart, A. R., Mlčoch, P., Mugnai, L., Nakashima, C., Nilsson, R. H., Noumeur, S. R., Pavlov, I. N., Peralta, M. P., Phillips, A. J.L., Pitt, J. I., Polizzi, G., Quaedvlieg, W., Rajeshkumar, K. C., Restrepo, S., Rhaiem, A., Robert, J., Robert, V., Rodrigues, A. M., Salgado-Salazar, C., Samson, R. A., Santos, A. C.S., Shivas, R. G., Souza-Motta, C. M., Sun, G. Y., Swart, W. J., Szoke, S., Tan, Y. P., Taylor, J. E., Taylor, P. W.J., Tiago, P. V., Váczy, K. Z., van de Wiele, N., van der Merwe, N. A., Verkley, G. J.M., Vieira, W. A.S., Vizzini, A., Weir, B. S., Wijayawardene, N. N., Xia, J. W., Yáñez-Morales, M. J., Yurkov, A., Zamora, J. C., Zare, R., Zhang, C. L., Thines, M., Crous, P. W., Lombard, L., Sandoval-Denis, M., Seifert, K. A., Schroers, H. J., Chaverri, P., Gené, J., Guarro, J., Hirooka, Y., Bensch, K., Kema, G. H.J., Lamprecht, S. C., Cai, L., Rossman, A. Y., Stadler, M., Summerbell, R. C., Taylor, J. W., Ploch, S., Visagie, C. M., Yilmaz, N., Frisvad, J. C., Abdel-Azeem, A. M., Abdollahzadeh, J., Abdolrasouli, A., Akulov, A., Alberts, J. F., Araújo, J. P.M., Ariyawansa, H. A., Bakhshi, M., Bendiksby, M., Ben Hadj Amor, A., Bezerra, J. D.P., Boekhout, T., Câmara, M. P.S., Carbia, M., Cardinali, G., Castañeda-Ruiz, R. F., Celis, A., Chaturvedi, V., Collemare, J., Croll, D., Damm, U., Decock, C. A., de Vries, R. P., Ezekiel, C. N., Fan, X. L., Fernández, N. B., Gaya, E., González, C. D., Gramaje, D., Groenewald, J. Z., Grube, M., Guevara-Suarez, M., Gupta, V. K., Guarnaccia, V., Haddaji, A., Hagen, F., Haelewaters, D., Hansen, K., Hashimoto, A., Hernández-Restrepo, M., Houbraken, J., Hubka, V., Hyde, K. D., Iturriaga, T., Jeewon, R., Johnston, P. R., Jurjević, Karalti, Korsten, L., Kuramae, E. E., Kušan, I., Labuda, R., Lawrence, D. P., Lee, H. B., Lechat, C., Li, H. Y., Litovka, Y. A., Maharachchikumbura, S. S.N., Marin-Felix, Y., Matio Kemkuignou, B., Matočec, N., McTaggart, A. R., Mlčoch, P., Mugnai, L., Nakashima, C., Nilsson, R. H., Noumeur, S. R., Pavlov, I. N., Peralta, M. P., Phillips, A. J.L., Pitt, J. I., Polizzi, G., Quaedvlieg, W., Rajeshkumar, K. C., Restrepo, S., Rhaiem, A., Robert, J., Robert, V., Rodrigues, A. M., Salgado-Salazar, C., Samson, R. A., Santos, A. C.S., Shivas, R. G., Souza-Motta, C. M., Sun, G. Y., Swart, W. J., Szoke, S., Tan, Y. P., Taylor, J. E., Taylor, P. W.J., Tiago, P. V., Váczy, K. Z., van de Wiele, N., van der Merwe, N. A., Verkley, G. J.M., Vieira, W. A.S., Vizzini, A., Weir, B. S., Wijayawardene, N. N., Xia, J. W., Yáñez-Morales, M. J., Yurkov, A., Zamora, J. C., Zare, R., Zhang, C. L., and Thines, M.

Abstract

Recent publications have argued that there are potentially serious consequences for researchers in recognising distinct genera in the terminal fusarioid clade of the family Nectriaceae. Thus, an alternate hypothesis, namely a very broad concept of the genus Fusarium was proposed. In doing so, however, a significant body of data that supports distinct genera in Nectriaceae based on morphology, biology, and phylogeny is disregarded. A DNA phylogeny based on 19 orthologous protein-coding genes was presented to support a very broad concept of Fusarium at the F1 node in Nectriaceae. Here, we demonstrate that re-analyses of this dataset show that all 19 genes support the F3 node that represents Fusarium sensu stricto as defined by F. sambucinum (sexual morph synonym Gibberella pulicaris). The backbone of the phylogeny is resolved by the concatenated alignment, but only six of the 19 genes fully support the F1 node, representing the broad circumscription of Fusarium. Furthermore, a re-analysis of the concatenated dataset revealed alternate topologies in different phylogenetic algorithms, highlighting the deep divergence and unresolved placement of various Nectriaceae lineages proposed as members of Fusarium. Species of Fusarium s. str. are characterised by Gibberella sexual morphs, asexual morphs with thin- or thick-walled macroconidia that have variously shaped apical and basal cells, and trichothecene mycotoxin production, which separates them from other fusarioid genera. Here we show that the Wollenweber concept of Fusarium presently accounts for 20 segregate genera with clear-cut synapomorphic traits, and that fusarioid macroconidia represent a character that has been gained or lost multiple times throughout Nectriaceae. Thus, the very broad circumscription of Fusarium is blurry and without apparent synapomorphies, and does not include all genera with fusarium-like macroconidia, which are spread throughout Nectriaceae (e.g., Cosmosporella, Macroconia, Microcera). In

Published
2021

47. Fusarium: more than a node or a foot-shaped basal cell

Author

Sub Molecular Microbiology, Sub Molecular Plant Physiology, Sub Ecology and Biodiversity, Molecular Microbiology, Molecular Plant Physiology, Ecology and Biodiversity, Crous, P. W., Lombard, L., Sandoval-Denis, M., Seifert, K. A., Schroers, H. J., Chaverri, P., Gené, J., Guarro, J., Hirooka, Y., Bensch, K., Kema, G. H.J., Lamprecht, S. C., Cai, L., Rossman, A. Y., Stadler, M., Summerbell, R. C., Taylor, J. W., Ploch, S., Visagie, C. M., Yilmaz, N., Frisvad, J. C., Abdel-Azeem, A. M., Abdollahzadeh, J., Abdolrasouli, A., Akulov, A., Alberts, J. F., Araújo, J. P.M., Ariyawansa, H. A., Bakhshi, M., Bendiksby, M., Ben Hadj Amor, A., Bezerra, J. D.P., Boekhout, T., Câmara, M. P.S., Carbia, M., Cardinali, G., Castañeda-Ruiz, R. F., Celis, A., Chaturvedi, V., Collemare, J., Croll, D., Damm, U., Decock, C. A., de Vries, R. P., Ezekiel, C. N., Fan, X. L., Fernández, N. B., Gaya, E., González, C. D., Gramaje, D., Groenewald, J. Z., Grube, M., Guevara-Suarez, M., Gupta, V. K., Guarnaccia, V., Haddaji, A., Hagen, F., Haelewaters, D., Hansen, K., Hashimoto, A., Hernández-Restrepo, M., Houbraken, J., Hubka, V., Hyde, K. D., Iturriaga, T., Jeewon, R., Johnston, P. R., Jurjević, Karalti, Korsten, L., Kuramae, E. E., Kušan, I., Labuda, R., Lawrence, D. P., Lee, H. B., Lechat, C., Li, H. Y., Litovka, Y. A., Maharachchikumbura, S. S.N., Marin-Felix, Y., Matio Kemkuignou, B., Matočec, N., McTaggart, A. R., Mlčoch, P., Mugnai, L., Nakashima, C., Nilsson, R. H., Noumeur, S. R., Pavlov, I. N., Peralta, M. P., Phillips, A. J.L., Pitt, J. I., Polizzi, G., Quaedvlieg, W., Rajeshkumar, K. C., Restrepo, S., Rhaiem, A., Robert, J., Robert, V., Rodrigues, A. M., Salgado-Salazar, C., Samson, R. A., Santos, A. C.S., Shivas, R. G., Souza-Motta, C. M., Sun, G. Y., Swart, W. J., Szoke, S., Tan, Y. P., Taylor, J. E., Taylor, P. W.J., Tiago, P. V., Váczy, K. Z., van de Wiele, N., van der Merwe, N. A., Verkley, G. J.M., Vieira, W. A.S., Vizzini, A., Weir, B. S., Wijayawardene, N. N., Xia, J. W., Yáñez-Morales, M. J., Yurkov, A., Zamora, J. C., Zare, R., Zhang, C. L., Thines, M., Sub Molecular Microbiology, Sub Molecular Plant Physiology, Sub Ecology and Biodiversity, Molecular Microbiology, Molecular Plant Physiology, Ecology and Biodiversity, Crous, P. W., Lombard, L., Sandoval-Denis, M., Seifert, K. A., Schroers, H. J., Chaverri, P., Gené, J., Guarro, J., Hirooka, Y., Bensch, K., Kema, G. H.J., Lamprecht, S. C., Cai, L., Rossman, A. Y., Stadler, M., Summerbell, R. C., Taylor, J. W., Ploch, S., Visagie, C. M., Yilmaz, N., Frisvad, J. C., Abdel-Azeem, A. M., Abdollahzadeh, J., Abdolrasouli, A., Akulov, A., Alberts, J. F., Araújo, J. P.M., Ariyawansa, H. A., Bakhshi, M., Bendiksby, M., Ben Hadj Amor, A., Bezerra, J. D.P., Boekhout, T., Câmara, M. P.S., Carbia, M., Cardinali, G., Castañeda-Ruiz, R. F., Celis, A., Chaturvedi, V., Collemare, J., Croll, D., Damm, U., Decock, C. A., de Vries, R. P., Ezekiel, C. N., Fan, X. L., Fernández, N. B., Gaya, E., González, C. D., Gramaje, D., Groenewald, J. Z., Grube, M., Guevara-Suarez, M., Gupta, V. K., Guarnaccia, V., Haddaji, A., Hagen, F., Haelewaters, D., Hansen, K., Hashimoto, A., Hernández-Restrepo, M., Houbraken, J., Hubka, V., Hyde, K. D., Iturriaga, T., Jeewon, R., Johnston, P. R., Jurjević, Karalti, Korsten, L., Kuramae, E. E., Kušan, I., Labuda, R., Lawrence, D. P., Lee, H. B., Lechat, C., Li, H. Y., Litovka, Y. A., Maharachchikumbura, S. S.N., Marin-Felix, Y., Matio Kemkuignou, B., Matočec, N., McTaggart, A. R., Mlčoch, P., Mugnai, L., Nakashima, C., Nilsson, R. H., Noumeur, S. R., Pavlov, I. N., Peralta, M. P., Phillips, A. J.L., Pitt, J. I., Polizzi, G., Quaedvlieg, W., Rajeshkumar, K. C., Restrepo, S., Rhaiem, A., Robert, J., Robert, V., Rodrigues, A. M., Salgado-Salazar, C., Samson, R. A., Santos, A. C.S., Shivas, R. G., Souza-Motta, C. M., Sun, G. Y., Swart, W. J., Szoke, S., Tan, Y. P., Taylor, J. E., Taylor, P. W.J., Tiago, P. V., Váczy, K. Z., van de Wiele, N., van der Merwe, N. A., Verkley, G. J.M., Vieira, W. A.S., Vizzini, A., Weir, B. S., Wijayawardene, N. N., Xia, J. W., Yáñez-Morales, M. J., Yurkov, A., Zamora, J. C., Zare, R., Zhang, C. L., and Thines, M.

Published
2021

48. Fusarium: more than a node or a foot-shaped basal cell

Author

Crous, P.W., Lombard, L., Sandoval-Denis, M., Seifert, K.A., Schroers, H.-J., Chaverri, P., Gené, J., Guarro, J., Hirooka, Y., Bensch, K., Kema, G.H.J., Lamprecht, S.C., Cai, L., Rossman, A.Y., Stadler, M., Summerbell, R.C., Taylor, J.W., Ploch, S., Visagie, C.M., Yilmaz, N., Frisvad, J.C., Abdel-Azeem, A.M., Abdollahzadeh, J., Abdolrasouli, A., Akulov, A., Alberts, J.F., Araújo, J.P.M., Ariyawansa, H.A., Bakhshi, M., Bendiksby, M., Amor, A. Ben Hadj, Bezerra, J.D.P., Boekhout, T., Câmara, M.P.S., Carbia, M., Cardinali, G., Castañeda-Ruiz, R.F., Celis, A., Chaturvedi, V., Collemare, J., Croll, D., Damm, U., Decock, C.A., Vries, R.P. de, Ezekiel, C.N., Fan, X.L., Fernández, N.B., Gaya, E., González, C.D., Gramaje, D., Groenewald, J.Z., Grube, M., Guevara-Suarez, M., Gupta, V.K., Guarnaccia, V., Haddaji, A., Hagen, F., Haelewaters, D., Hansen, K., Hashimoto, A., Hernández-Restrepo, M., Houbraken, J., Hubka, V., Hyde, K.D., Iturriaga, T., Jeewon, R., Johnston, P.R., Jurjević, Ž., Karalti, İ., Korsten, L., Kuramae, E.E., Kušan, I., Labuda, R., Lawrence, D.P., Lee, H.B., Lechat, C., Li, H.Y., Litovka, Y.A., Maharachchikumbura, S.S.N., Marin-Felix, Y., Kemkuignou, B. Matio, Matočec, N., McTaggart, A.R., Mlčoch, P., Mugnai, L., Nakashima, C., Nilsson, R.H., Noumeur, S.R., Pavlov, I.N., Peralta, M.P., Phillips, A.J.L., Pitt, J.I., Polizzi, G., Quaedvlieg, W., Rajeshkumar, K.C., Restrepo, S., Rhaiem, A., Robert, J., Robert, V., Rodrigues, A.M., Salgado-Salazar, C., Samson, R.A., Santos, A.C.S., Shivas, R.G., Souza-Motta, C.M., Sun, G.Y., Swart, W.J., Szoke, S., Tan, Y.P., Taylor, J.E., Taylor, P.W.J., Tiago, P.V., Váczy, K.Z., Wiele, N. van de, Merwe, N.A. van der, Verkley, G.J.M., Vieira, W.A.S., Vizzini, A., Weir, B.S., Wijayawardene, N.N., Xia, J.W., Yáñez-Morales, M.J., Yurkov, A., Zamora, J.C., Zare, R., Zhang, C.L., Thines, M., Crous, P.W., Lombard, L., Sandoval-Denis, M., Seifert, K.A., Schroers, H.-J., Chaverri, P., Gené, J., Guarro, J., Hirooka, Y., Bensch, K., Kema, G.H.J., Lamprecht, S.C., Cai, L., Rossman, A.Y., Stadler, M., Summerbell, R.C., Taylor, J.W., Ploch, S., Visagie, C.M., Yilmaz, N., Frisvad, J.C., Abdel-Azeem, A.M., Abdollahzadeh, J., Abdolrasouli, A., Akulov, A., Alberts, J.F., Araújo, J.P.M., Ariyawansa, H.A., Bakhshi, M., Bendiksby, M., Amor, A. Ben Hadj, Bezerra, J.D.P., Boekhout, T., Câmara, M.P.S., Carbia, M., Cardinali, G., Castañeda-Ruiz, R.F., Celis, A., Chaturvedi, V., Collemare, J., Croll, D., Damm, U., Decock, C.A., Vries, R.P. de, Ezekiel, C.N., Fan, X.L., Fernández, N.B., Gaya, E., González, C.D., Gramaje, D., Groenewald, J.Z., Grube, M., Guevara-Suarez, M., Gupta, V.K., Guarnaccia, V., Haddaji, A., Hagen, F., Haelewaters, D., Hansen, K., Hashimoto, A., Hernández-Restrepo, M., Houbraken, J., Hubka, V., Hyde, K.D., Iturriaga, T., Jeewon, R., Johnston, P.R., Jurjević, Ž., Karalti, İ., Korsten, L., Kuramae, E.E., Kušan, I., Labuda, R., Lawrence, D.P., Lee, H.B., Lechat, C., Li, H.Y., Litovka, Y.A., Maharachchikumbura, S.S.N., Marin-Felix, Y., Kemkuignou, B. Matio, Matočec, N., McTaggart, A.R., Mlčoch, P., Mugnai, L., Nakashima, C., Nilsson, R.H., Noumeur, S.R., Pavlov, I.N., Peralta, M.P., Phillips, A.J.L., Pitt, J.I., Polizzi, G., Quaedvlieg, W., Rajeshkumar, K.C., Restrepo, S., Rhaiem, A., Robert, J., Robert, V., Rodrigues, A.M., Salgado-Salazar, C., Samson, R.A., Santos, A.C.S., Shivas, R.G., Souza-Motta, C.M., Sun, G.Y., Swart, W.J., Szoke, S., Tan, Y.P., Taylor, J.E., Taylor, P.W.J., Tiago, P.V., Váczy, K.Z., Wiele, N. van de, Merwe, N.A. van der, Verkley, G.J.M., Vieira, W.A.S., Vizzini, A., Weir, B.S., Wijayawardene, N.N., Xia, J.W., Yáñez-Morales, M.J., Yurkov, A., Zamora, J.C., Zare, R., Zhang, C.L., and Thines, M.

Abstract

Recent publications have argued that there are potentially serious consequences for researchers in recognising distinct genera in the terminal fusarioid clade of the family Nectriaceae. Thus, an alternate hypothesis, namely a very broad concept of the genus Fusarium was proposed. In doing so, however, a significant body of data that supports distinct genera in Nectriaceae based on morphology, biology, and phylogeny is disregarded. A DNA phylogeny based on 19 orthologous protein-coding genes was presented to support a very broad concept of Fusarium at the F1 node in Nectriaceae. Here, we demonstrate that re-analyses of this dataset show that all 19 genes support the F3 node that represents Fusarium sensu stricto as defined by F. sambucinum (sexual morph synonym Gibberella pulicaris). The backbone of the phylogeny is resolved by the concatenated alignment, but only six of the 19 genes fully support the F1 node, representing the broad circumscription of Fusarium. Furthermore, a re-analysis of the concatenated dataset revealed alternate topologies in different phylogenetic algorithms, highlighting the deep divergence and unresolved placement of various Nectriaceae lineages proposed as members of Fusarium. Species of Fusarium s. str. are characterised by Gibberella sexual morphs, asexual morphs with thin- or thick-walled macroconidia that have variously shaped apical and basal cells, and trichothecene mycotoxin production, which separates them from other fusarioid genera. Here we show that the Wollenweber concept of Fusarium presently accounts for 20 segregate genera with clear-cut synapomorphic traits, and that fusarioid macroconidia represent a character that has been gained or lost multiple times throughout Nectriaceae. Thus, the very broad circumscription of Fusarium is blurry and without apparent synapomorphies, and does not include all genera with fusarium-like macroconidia, which are spread throughout Nectriaceae (e.g., Cosmosporella, Macroconia, Microcera). In th

Published
2021

49. Fusarium: more than a node or a foot-shaped basal cell

Author

Universitat Rovira i Virgili, Crous, P. W.; Lombard, L.; Sandoval-Denis, M.; Seifert, K. A.; Schroers, H-J; Chaverri, P.; Gene, J.; Guarro, J.; Hirooka, Y.; Bensch, K.; Kema, G. H. J.; Lamprecht, S. C.; Cai, L.; Rossman, A. Y.; Stadler, M.; Summerbell, R. C.; Taylor, J. W.; Ploch, S.; Visagie, C. M.; Yilmaz, N.; Frisvad, J. C.; Abdel-Azeem, A. M.; Abdollahzadeh, J.; Abdolrasouli, A.; Akulov, A.; Alberts, J. F.; Araujo, J. P. M.; Ariyawansa, H. A.; Bakhshi, M.; Bendiksby, M.; Amor, A. Ben Hadj; Bezerra, J. D. P.; Boekhout, T.; Camara, M. P. S.; Carbia, M.; Cardinali, G.; Castaneda-Ruiz, R. F.; Celis, A.; Chaturvedi, V; Collemare, J.; Croll, D.; Damm, U.; Decock, C. A.; de Vries, R. P.; Ezekiel, C. N.; Fan, X. L.; Fernandez, N. B.; Gaya, E.; Gonzalez, C. D.; Gramaje, D.; Groenewald, J. Z.; Grube, M.; Guevara-Suarez, M.; Gupta, V. K.; Guarnaccia, V; Haddaji, A.; Hagen, F.; Haelewaters, D.; Hansen, K.; Hashimoto, A.; Hernandez-Restrepo, M.; Houbraken, J.; Hubka, V; Hyde, K. D.; Iturriaga, T.; Jeewon, R.; Johnston, P. R.; Jurjevic, Z.; Karalti, I; Korsten, L.; Kuramae, E. E.; Kusan, I; Labuda, R.; Lawrence, D. P.; Lee, H. B.; Lechat, C.; Li, H. Y.; Litovka, Y. A.; Maharachchikumbura, S. S. N.; Marin-Felix, Y.; Kemkuignou, B. Matio; Matocec, N.; McTaggart, A. R.; Mlcoch, P.; Mugnai, L.; Nakashima, C.; Nilsson, R. H.; Noumeur, S. R.; Pavlov, I. N.; Peralta, M. P.; Phillips, A. J. L.; Pitt, J., I; Polizzi, G.; Quaedvlieg, W.; Rajeshkumar, K. C.; Restrepo, S.; Rhaiem, A.; Robert, J.; Robert, V; Rodrigues, A. M.; Salgado-Salazar, C.; Samson, R. A.; Santos, A. C. S.; Shivas, R. G.; Souza-Motta, C. M.; Sun, G. Y.; Swart, W. J.; Szoke, S.; Tan, Y. P.; Taylor, J. E.; Taylor, P. W. J.; Tiago, P., V; Vaczy, K. Z.; van de Wiele, N.; van der Merwe, N. A.; Verkley, G. J. M.; Vieira, W. A. S.; Vizzini, A.; Weir, B. S., Universitat Rovira i Virgili, and Crous, P. W.; Lombard, L.; Sandoval-Denis, M.; Seifert, K. A.; Schroers, H-J; Chaverri, P.; Gene, J.; Guarro, J.; Hirooka, Y.; Bensch, K.; Kema, G. H. J.; Lamprecht, S. C.; Cai, L.; Rossman, A. Y.; Stadler, M.; Summerbell, R. C.; Taylor, J. W.; Ploch, S.; Visagie, C. M.; Yilmaz, N.; Frisvad, J. C.; Abdel-Azeem, A. M.; Abdollahzadeh, J.; Abdolrasouli, A.; Akulov, A.; Alberts, J. F.; Araujo, J. P. M.; Ariyawansa, H. A.; Bakhshi, M.; Bendiksby, M.; Amor, A. Ben Hadj; Bezerra, J. D. P.; Boekhout, T.; Camara, M. P. S.; Carbia, M.; Cardinali, G.; Castaneda-Ruiz, R. F.; Celis, A.; Chaturvedi, V; Collemare, J.; Croll, D.; Damm, U.; Decock, C. A.; de Vries, R. P.; Ezekiel, C. N.; Fan, X. L.; Fernandez, N. B.; Gaya, E.; Gonzalez, C. D.; Gramaje, D.; Groenewald, J. Z.; Grube, M.; Guevara-Suarez, M.; Gupta, V. K.; Guarnaccia, V; Haddaji, A.; Hagen, F.; Haelewaters, D.; Hansen, K.; Hashimoto, A.; Hernandez-Restrepo, M.; Houbraken, J.; Hubka, V; Hyde, K. D.; Iturriaga, T.; Jeewon, R.; Johnston, P. R.; Jurjevic, Z.; Karalti, I; Korsten, L.; Kuramae, E. E.; Kusan, I; Labuda, R.; Lawrence, D. P.; Lee, H. B.; Lechat, C.; Li, H. Y.; Litovka, Y. A.; Maharachchikumbura, S. S. N.; Marin-Felix, Y.; Kemkuignou, B. Matio; Matocec, N.; McTaggart, A. R.; Mlcoch, P.; Mugnai, L.; Nakashima, C.; Nilsson, R. H.; Noumeur, S. R.; Pavlov, I. N.; Peralta, M. P.; Phillips, A. J. L.; Pitt, J., I; Polizzi, G.; Quaedvlieg, W.; Rajeshkumar, K. C.; Restrepo, S.; Rhaiem, A.; Robert, J.; Robert, V; Rodrigues, A. M.; Salgado-Salazar, C.; Samson, R. A.; Santos, A. C. S.; Shivas, R. G.; Souza-Motta, C. M.; Sun, G. Y.; Swart, W. J.; Szoke, S.; Tan, Y. P.; Taylor, J. E.; Taylor, P. W. J.; Tiago, P., V; Vaczy, K. Z.; van de Wiele, N.; van der Merwe, N. A.; Verkley, G. J. M.; Vieira, W. A. S.; Vizzini, A.; Weir, B. S.

Abstract

Microbiology, Forestry and Agricultural Biotechnology Institute (FABI), Faculty of Natural and Agricultural Sciences, University of Pretoria, P. Bag X20, Hatfield, 0028, Pretoria, South Africa; 20Department of Biotechnology and Biomedicine, DTU-Bioengineering, Technical University of Denmark, 2800, Kongens Lyngby, Denmark; 21Systematic Mycology Lab., Botany and Microbiology Department, Faculty of Science, Suez Canal University, Ismailia, 41522, Egypt; 22Department of Plant Protection, Faculty of Agriculture, University of Kurdistan, P.O. Box 416, Sanandaj, Iran; 23Department of Medical Microbiology, King's College Hospital, London, UK;24Department of Infectious Diseases, Imperial College London, London, UK;25Department of Mycology and Plant Resistance, V. N. Karazin Kharkiv National University, Maidan Svobody 4, 61022, Kharkiv, Ukraine; 26Department of Food Science and Technology, Cape Peninsula University of Technology, P.O. Box 1906, Bellville, 7535, South Africa; 27School of Forest Resources and Conservation, University of Florida, Gainesville, FL, USA; 28Department of Plant Pathology and Microbiology, College of Bio-Resources and Agriculture, National Taiwan University, No.1, Sec.4, Roosevelt Road, Taipei, 106, Taiwan, ROC

Published
2021

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