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3. Comparative genomic analysis of six Glossina genomes, vectors of African trypanosomes

Author

Attardo, Geoffrey M, Abd-Alla, Adly MM, Acosta-Serrano, Alvaro, Allen, James E, Bateta, Rosemary, Benoit, Joshua B, Bourtzis, Kostas, Caers, Jelle, Caljon, Guy, Christensen, Mikkel B, Farrow, David W, Friedrich, Markus, Hua-Van, Aurélie, Jennings, Emily C, Larkin, Denis M, Lawson, Daniel, Lehane, Michael J, Lenis, Vasileios P, Lowy-Gallego, Ernesto, Macharia, Rosaline W, Malacrida, Anna R, Marco, Heather G, Masiga, Daniel, Maslen, Gareth L, Matetovici, Irina, Meisel, Richard P, Meki, Irene, Michalkova, Veronika, Miller, Wolfgang J, Minx, Patrick, Mireji, Paul O, Ometto, Lino, Parker, Andrew G, Rio, Rita, Rose, Clair, Rosendale, Andrew J, Rota-Stabelli, Omar, Savini, Grazia, Schoofs, Liliane, Scolari, Francesca, Swain, Martin T, Takáč, Peter, Tomlinson, Chad, Tsiamis, George, Van Den Abbeele, Jan, Vigneron, Aurelien, Wang, Jingwen, Warren, Wesley C, Waterhouse, Robert M, Weirauch, Matthew T, Weiss, Brian L, Wilson, Richard K, Zhao, Xin, and Aksoy, Serap

Subjects
Biological Sciences, Genetics, Vector-Borne Diseases, Biotechnology, Infectious Diseases, Infection, Good Health and Well Being, Animals, DNA Transposable Elements, Drosophila melanogaster, Female, Gene Expression Regulation, Genes, Insect, Genes, X-Linked, Genome, Insect, Genomics, Geography, Insect Proteins, Insect Vectors, Male, Mutagenesis, Insertional, Phylogeny, Repetitive Sequences, Nucleic Acid, Sequence Homology, Amino Acid, Synteny, Trypanosoma, Tsetse Flies, Wolbachia, Tsetse, Trypanosomiasis, Hematophagy, Lactation, Disease, Neglected, Symbiosis, Environmental Sciences, Information and Computing Sciences, Bioinformatics
Abstract

BackgroundTsetse flies (Glossina sp.) are the vectors of human and animal trypanosomiasis throughout sub-Saharan Africa. Tsetse flies are distinguished from other Diptera by unique adaptations, including lactation and the birthing of live young (obligate viviparity), a vertebrate blood-specific diet by both sexes, and obligate bacterial symbiosis. This work describes the comparative analysis of six Glossina genomes representing three sub-genera: Morsitans (G. morsitans morsitans, G. pallidipes, G. austeni), Palpalis (G. palpalis, G. fuscipes), and Fusca (G. brevipalpis) which represent different habitats, host preferences, and vectorial capacity.ResultsGenomic analyses validate established evolutionary relationships and sub-genera. Syntenic analysis of Glossina relative to Drosophila melanogaster shows reduced structural conservation across the sex-linked X chromosome. Sex-linked scaffolds show increased rates of female-specific gene expression and lower evolutionary rates relative to autosome associated genes. Tsetse-specific genes are enriched in protease, odorant-binding, and helicase activities. Lactation-associated genes are conserved across all Glossina species while male seminal proteins are rapidly evolving. Olfactory and gustatory genes are reduced across the genus relative to other insects. Vision-associated Rhodopsin genes show conservation of motion detection/tracking functions and variance in the Rhodopsin detecting colors in the blue wavelength ranges.ConclusionsExpanded genomic discoveries reveal the genetics underlying Glossina biology and provide a rich body of knowledge for basic science and disease control. They also provide insight into the evolutionary biology underlying novel adaptations and are relevant to applied aspects of vector control such as trap design and discovery of novel pest and disease control strategies.

Published
2019

5. The Glossina Genome Cluster: Comparative Genomic Analysis of the Vectors of African Trypanosomes

Author

Attardo, Geoffrey M, Abd-Alla, Adly MM, Acosta-Serrano, Alvaro, Allen, James E, Bateta, Rosemary, Benoit, Joshua B, Bourtzis, Kostas, Caers, Jelle, Caljon, Guy, Christensen, Mikkel B, Farrow, David W, Friedrich, Markus, Hua-Van, Aurélie, Jennings, Emily C, Larkin, Denis M, Lawson, Daniel, Lehane, Michael J, Lenis, Vasileios P, Lowy-Gallego, Ernesto, Macharia, Rosaline W, Malacrida, Anna R, Marco, Heather G, Masiga, Daniel, Maslen, Gareth L, Matetovici, Irina, Meisel, Richard P, Meki, Irene, Michalkova, Veronika, Miller, Wolfgang J, Minx, Patrick, Mireji, Paul O, Ometto, Lino, Parker, Andrew G, Rio, Rita, Rose, Clair, Rosendale, Andrew J, Rota-Stabelli, Omar, Savini, Grazia, Schoofs, Liliane, Scolari, Francesca, Swain, Martin T, Takáč, Peter, Tomlinson, Chad, Tsiamis, George, Van Den Abbeele, Jan, Vigneron, Aurelien, Wang, Jingwen, Warren, Wesley C, Waterhouse, Robert M, Weirauch, Matthew T, Weiss, Brian L, Wilson, Richard K, Zhao, Xin, and Aksoy, Serap

Subjects
Biological Sciences, Genetics, Infectious Diseases, Vector-Borne Diseases, Biotechnology, Infection, Good Health and Well Being
Abstract

Background: Tsetse flies (Glossina sp.) are the sole vectors of human and animal trypanosomiasis throughout sub-Saharan Africa. Tsetse are distinguished from other Diptera by unique adaptations, including lactation and the birthing of live young (obligate viviparity), a vertebrate blood specific diet by both sexes and obligate bacterial symbiosis. This work describes comparative analysis of six Glossina genomes representing three sub-genera: Morsitans (G. morsitans morsitans (G.m. morsitans), G. pallidipes, G. austeni), Palpalis (G. palpalis, G. fuscipes) and Fusca (G. brevipalpis) which represent different habitats, host preferences and vectorial capacity. Results: Genomic analyses validate established evolutionary relationships and sub-genera. Syntenic analysis of Glossina relative to Drosophila melanogaster shows reduced structural conservation across the sex-linked X chromosome. Sex linked scaffolds show increased rates of female specific gene expression and lower evolutionary rates relative to autosome associated genes. Tsetse specific genes are enriched in protease, odorant binding and helicase activities. Lactation associated genes are conserved across all Glossina species while male seminal proteins are rapidly evolving. Olfactory and gustatory genes are reduced across the genus relative to other characterized insects. Vision associated Rhodopsin genes show conservation of motion detection/tracking functions and significant variance in the Rhodopsin detecting colors in the blue wavelength ranges. Conclusions: Expanded genomic discoveries reveal the genetics underlying Glossina biology and provide a rich body of knowledge for basic science and disease control. They also provide insight into the evolutionary biology underlying novel adaptations and are relevant to applied aspects of vector control such as trap design and discovery of novel pest and disease control strategies.

Published
2019

7. Enhancer grammar of liver cell types and hepatocyte zonation states

Author

González-Blas, Carmen Bravo, primary, Matetovici, Irina, additional, Hillen, Hanne, additional, Taskiran, Ibrahim Ihsan, additional, Vandepoel, Roel, additional, Christiaens, Valerie, additional, Sansores-García, Leticia, additional, Verboven, Elisabeth, additional, Hulselmans, Gert, additional, Poovathingal, Suresh, additional, Demeulemeester, Jonas, additional, Psatha, Nikoleta, additional, Mauduit, David, additional, Halder, Georg, additional, and Aerts, Stein, additional

Published
2022
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11. Additional file 2 of Comparative analysis of antibody- and lipid-based multiplexing methods for single-cell RNA-seq

Author

Mylka, Viacheslav, Matetovici, Irina, Poovathingal, Suresh, Aerts, Jeroen, Vandamme, Niels, Seurinck, Ruth, Verstaen, Kevin, Hulselmans, Gert, Van den Hoecke, Silvie, Scheyltjens, Isabelle, Movahedi, Kiavash, Wils, Hans, Reumers, Joke, Van Houdt, Jeroen, Aerts, Stein, and Saeys, Yvan

Abstract

Additional file 2. Reviewer History.

Published
2022
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12. Additional file 1 of Comparative analysis of antibody- and lipid-based multiplexing methods for single-cell RNA-seq

Author

Mylka, Viacheslav, Matetovici, Irina, Poovathingal, Suresh, Aerts, Jeroen, Vandamme, Niels, Seurinck, Ruth, Verstaen, Kevin, Hulselmans, Gert, Van den Hoecke, Silvie, Scheyltjens, Isabelle, Movahedi, Kiavash, Wils, Hans, Reumers, Joke, Van Houdt, Jeroen, Aerts, Stein, and Saeys, Yvan

Abstract

Additional file 1. Combination of all supplementary figures (Fig S1 ���S12) and tables (table S1-S4).

Published
2022
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13. Glacial Survival of Boreal Trees in Northern Scandinavia

Author

Parducci, Laura, Jørgensen, Tina, Tollefsrud, Mari Mette, Elverland, Ellen, Alm, Torbjørn, Fontana, Sonia L., Bennett, K. D., Haile, James, Matetovici, Irina, Suyama, Yoshihisa, Edwards, Mary E., Andersen, Kenneth, Rasmussen, Morten, Boessenkool, Sanne, Coissac, Eric, Brochmann, Christian, Taberlet, Pierre, Houmark-Nielsen, Michael, Larsen, Nicolaj Krog, Orlando, Ludovic, Gilbert, M. Thomas P., Kjaer, Kurt H., Alsos, Inger Greve, and Willerslev, Eske

Published
2012
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14. Comparative analysis of antibody- and lipid-based multiplexing methods for single-cell RNA-seq

Author

Mylka, Viacheslav, primary, Aerts, Jeroen, additional, Matetovici, Irina, additional, Poovathingal, Suresh, additional, Vandamme, Niels, additional, Seurinck, Ruth, additional, Hulselmans, Gert, additional, Van Den Hoecke, Silvie, additional, Wils, Hans, additional, Reumers, Joke, additional, Van Houdt, Jeroen, additional, Aerts, Stein, additional, and Saeys, Yvan, additional

Published
2020
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15. Additional file 13: of Comparative genomic analysis of six Glossina genomes, vectors of African trypanosomes

Author

Attardo, Geoffrey, Adly Abd-Alla, Acosta-Serrano, Alvaro, Allen, James, Bateta, Rosemary, Benoit, Joshua, Bourtzis, Kostas, Caers, Jelle, Caljon, Guy, Christensen, Mikkel, Farrow, David, Friedrich, Markus, Aurélie Hua-Van, Jennings, Emily, Larkin, Denis, Lawson, Daniel, Lehane, Michael, Lenis, Vasileios, Lowy-Gallego, Ernesto, Macharia, Rosaline, Malacrida, Anna, Marco, Heather, Masiga, Daniel, Maslen, Gareth, Matetovici, Irina, Meisel, Richard, Meki, Irene, Michalkova, Veronika, Miller, Wolfgang, Minx, Patrick, Mireji, Paul, Ometto, Lino, Parker, Andrew, Rio, Rita, Rose, Clair, Rosendale, Andrew, Rota-Stabelli, Omar, Savini, Grazia, Schoofs, Liliane, Scolari, Francesca, Swain, Martin, Takáč, Peter, Tomlinson, Chad, Tsiamis, George, Abbeele, Jan, Vigneron, Aurelien, Jingwen Wang, Warren, Wesley, Waterhouse, Robert, Weirauch, Matthew, Weiss, Brian, Wilson, Richard, Zhao, Xin, and Aksoy, Serap

Abstract

Review history. (DOCX 31 kb)

Published
2019
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18. The Glossina Genome Cluster: Comparative Genomic Analysis of the Vectors of African Trypanosomes

Author

Attardo, Geoffrey Michael, primary, Abd-Alla, Adly M.M., additional, Acosta-Serrano, Alvaro, additional, Allen, James E, additional, Bateta, Rosemary, additional, Benoit, Joshua, additional, Bourtzis, Kostas, additional, Caers, Jelle, additional, Caljon, Guy, additional, Christensen, Mikkel B., additional, Farrow, David W., additional, Friedrich, Markus, additional, Hua-Van, Aurélie, additional, Jennings, Emily C., additional, Larkin, Denis M, additional, Lawson, Daniel, additional, Lehane, Michael J., additional, Lenis, Vasileios P., additional, Lowy-Gallego, Ernesto, additional, Macharia, Rosaline W., additional, Malacrida, Anna R., additional, Marco, Heather G., additional, Masiga, Daniel, additional, Maslen, Gareth L., additional, Matetovici, Irina, additional, Meisel, Richard P., additional, Meki, Irene, additional, Michalkova, Veronika, additional, Miller, Wolfgang J., additional, Minx, Patrick, additional, Mireji, Paul O., additional, Ometto, Lino, additional, Parker, Andrew G., additional, Rio, Rita, additional, Rose, Clair, additional, Rosendale, Andrew J., additional, Rota Stabelli, Omar, additional, Savini, Grazia, additional, Schoofs, Liliane, additional, Scolari, Francesca, additional, Swain, Martin T., additional, Takáč, Peter, additional, Tomlinson, Chad, additional, Tsiamis, George, additional, Van Den Abbeele, Jan, additional, Vigneron, Aurélien, additional, Wang, Jingwen, additional, Warren, Wesley C., additional, Waterhouse, Robert M., additional, Weirauch, Matthew T., additional, Weiss, Brian L., additional, Wilson, Richard K., additional, Zhao, Xin, additional, and Aksoy, Serap, additional

Published
2019
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19. Additional file 10: Figure S2. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

Author

Matetovici, Irina, Caljon, Guy, and Abbeele, Jan Van Den

Subjects
fungi
Abstract

Heat map showing the affected salivary gland transcripts in midgut only T. brucei-infected flies. The heat maps were obtained by plotting the mean of normalized read counts (scaled by row and hierarchical clustered) in the three infection conditions. Colors display z-scores from â 2 (low expression: dark blue) to 2 (high expression: red) for normalized gene expression values. (PDF 190Â kb)

Published
2016
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20. Additional file 5: Figure S1. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

Author

Matetovici, Irina, Caljon, Guy, and Abbeele, Jan Van Den

Abstract

Heat map showing the differentially expressed transcripts shared between experimental conditions. The heat maps were obtained by plotting the mean of normalized read counts (scaled by row and hierarchical clustered) in the three infection conditions. Colors display z-scores from â 2 (low expression: dark blue) to 2 (high expression: red) for normalized gene expression values. (PDF 107Â kb)

Published
2016
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22. Comparative genomic analysis of six Glossinagenomes, vectors of African trypanosomes

Author

Attardo, Geoffrey, Abd-Alla, Adly, Acosta-Serrano, Alvaro, Allen, James, Bateta, Rosemary, Benoit, Joshua, Bourtzis, Kostas, Caers, Jelle, Caljon, Guy, Christensen, Mikkel, Farrow, David, Friedrich, Markus, Hua-Van, Aurélie, Jennings, Emily, Larkin, Denis, Lawson, Daniel, Lehane, Michael, Lenis, Vasileios, Lowy-Gallego, Ernesto, Macharia, Rosaline, Malacrida, Anna, Marco, Heather, Masiga, Daniel, Maslen, Gareth, Matetovici, Irina, Meisel, Richard, Meki, Irene, Michalkova, Veronika, Miller, Wolfgang, Minx, Patrick, Mireji, Paul, Ometto, Lino, Parker, Andrew, Rio, Rita, Rose, Clair, Rosendale, Andrew, Rota-Stabelli, Omar, Savini, Grazia, Schoofs, Liliane, Scolari, Francesca, Swain, Martin, Takáč, Peter, Tomlinson, Chad, Tsiamis, George, Abbeele, Jan, Vigneron, Aurelien, Wang, Jingwen, Warren, Wesley, Waterhouse, Robert, Weirauch, Matthew, Weiss, Brian, Wilson, Richard, Zhao, Xin, and Aksoy, Serap

Abstract

Tsetse flies (Glossinasp.) are the vectors of human and animal trypanosomiasis throughout sub-Saharan Africa. Tsetse flies are distinguished from other Diptera by unique adaptations, including lactation and the birthing of live young (obligate viviparity), a vertebrate blood-specific diet by both sexes, and obligate bacterial symbiosis. This work describes the comparative analysis of six Glossinagenomes representing three sub-genera: Morsitans(G. morsitans morsitans, G. pallidipes, G. austeni), Palpalis(G. palpalis, G. fuscipes), and Fusca(G. brevipalpis) which represent different habitats, host preferences, and vectorial capacity. Genomic analyses validate established evolutionary relationships and sub-genera. Syntenic analysis of Glossinarelative to Drosophila melanogastershows reduced structural conservation across the sex-linked X chromosome. Sex-linked scaffolds show increased rates of female-specific gene expression and lower evolutionary rates relative to autosome associated genes. Tsetse-specific genes are enriched in protease, odorant-binding, and helicase activities. Lactation-associated genes are conserved across all Glossinaspecies while male seminal proteins are rapidly evolving. Olfactory and gustatory genes are reduced across the genus relative to other insects. Vision-associated Rhodopsin genes show conservation of motion detection/tracking functions and variance in the Rhodopsin detecting colors in the blue wavelength ranges. Expanded genomic discoveries reveal the genetics underlying Glossinabiology and provide a rich body of knowledge for basic science and disease control. They also provide insight into the evolutionary biology underlying novel adaptations and are relevant to applied aspects of vector control such as trap design and discovery of novel pest and disease control strategies.

Published
2019
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24. Verification Report on the extraction and analysis of GM pollen DNA in honey

Author

VAN DEN BULCKE Marc, MATETOVICI IRINA, MAZZARA Marco, VAN DEN EEDE Guy, and KREYSA JOACHIM

Subjects
digestive, oral, and skin physiology, food and beverages
Abstract

Following the judgment of 06 September 2011 on GM honey by the European Court of Justice (legal case C-442-09), the European Union Reference Laboratory for Genetically Modified Food and Feed (EU-RL GMFF) established by Regulation (EC) No 1829/2003, performed an in-house study to test the extraction and PCR analysis of genomic DNA from genetically modified pollen in honey. The present report documents on an extraction method for isolation and analysis of pollen DNA present in honey, including the isolation and analysis of isolated genomic pollen DNA using real-time PCR on commercial honey samples and honey samples spiked with various levels of GM MON 810 pollen., JRC.I.3-Molecular Biology and Genomics

Published
2012

25. Molecular- and pollen-based vegetation analysis in lake sediments from central Scandinavia

Author

Parducci, Laura, Matetovici, Irina, Fontana Sonia, L, Bennett Keith, D, Suyama, Yoshihisa, Haile, James, Kjær Kurt, H, Larsen Nicolaj, K, Drouzas, Andreas, D, and Willerslev, Eske

Subjects
Vegetation analysis, Ecology, Pollen, Genetics, medicine, Biology, medicine.disease_cause, Ecology, Evolution, Behavior and Systematics, Molecular ecology
Published
2014

27. Additional file 9: Figure S5. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

Author

Matetovici, Irina, Caljon, Guy, and Abbeele, Jan Van Den

Subjects
fungi, 3. Good health
Abstract

The Toll signaling pathway in tsetse fly. The yellow squares represent members of the pathway in Glossina morsitans genome; the hexagon constitutive negative regulator; the transparent figures indicate a transcript that had no reads or the orthologue was not annotated in the tsetse fly genome. (PDF 71Â kb)

28. Additional file 8: Figure S4. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

Author

Matetovici, Irina, Caljon, Guy, and Abbeele, Jan Van Den

Subjects
fungi, 3. Good health
Abstract

The JAK/STAT signaling pathway in tsetse fly. The yellow squares represent members of the pathway in Glossina morsitans genome; the hexagon constitutive negative regulator; the transparent figures indicate a transcript that had no reads or the orthologue was not annotated in the tsetse fly genome. A broken line designates not a clear interaction. (PDF 74Â kb)

29. Additional file 2: of Comparative genomic analysis of six Glossina genomes, vectors of African trypanosomes

Author

Attardo, Geoffrey, Adly Abd-Alla, Acosta-Serrano, Alvaro, Allen, James, Bateta, Rosemary, Benoit, Joshua, Bourtzis, Kostas, Caers, Jelle, Caljon, Guy, Christensen, Mikkel, Farrow, David, Friedrich, Markus, Aurélie Hua-Van, Jennings, Emily, Larkin, Denis, Lawson, Daniel, Lehane, Michael, Lenis, Vasileios, Lowy-Gallego, Ernesto, Macharia, Rosaline, Malacrida, Anna, Marco, Heather, Masiga, Daniel, Maslen, Gareth, Matetovici, Irina, Meisel, Richard, Meki, Irene, Michalkova, Veronika, Miller, Wolfgang, Minx, Patrick, Mireji, Paul, Ometto, Lino, Parker, Andrew, Rio, Rita, Rose, Clair, Rosendale, Andrew, Rota-Stabelli, Omar, Savini, Grazia, Schoofs, Liliane, Scolari, Francesca, Swain, Martin, Takáč, Peter, Tomlinson, Chad, Tsiamis, George, Abbeele, Jan, Vigneron, Aurelien, Jingwen Wang, Warren, Wesley, Waterhouse, Robert, Weirauch, Matthew, Weiss, Brian, Wilson, Richard, Zhao, Xin, and Aksoy, Serap

Subjects
3. Good health
Abstract

Supplemental Figures S1-S12 and associated captions. (PDF 2260 kb)

30. Additional file 2: of Comparative genomic analysis of six Glossina genomes, vectors of African trypanosomes

Author

Attardo, Geoffrey, Adly Abd-Alla, Acosta-Serrano, Alvaro, Allen, James, Bateta, Rosemary, Benoit, Joshua, Bourtzis, Kostas, Caers, Jelle, Caljon, Guy, Christensen, Mikkel, Farrow, David, Friedrich, Markus, Aurélie Hua-Van, Jennings, Emily, Larkin, Denis, Lawson, Daniel, Lehane, Michael, Lenis, Vasileios, Lowy-Gallego, Ernesto, Macharia, Rosaline, Malacrida, Anna, Marco, Heather, Masiga, Daniel, Maslen, Gareth, Matetovici, Irina, Meisel, Richard, Meki, Irene, Michalkova, Veronika, Miller, Wolfgang, Minx, Patrick, Mireji, Paul, Ometto, Lino, Parker, Andrew, Rio, Rita, Rose, Clair, Rosendale, Andrew, Rota-Stabelli, Omar, Savini, Grazia, Schoofs, Liliane, Scolari, Francesca, Swain, Martin, Takáč, Peter, Tomlinson, Chad, Tsiamis, George, Abbeele, Jan, Vigneron, Aurelien, Jingwen Wang, Warren, Wesley, Waterhouse, Robert, Weirauch, Matthew, Weiss, Brian, Wilson, Richard, Zhao, Xin, and Aksoy, Serap

Subjects
3. Good health
Abstract

Supplemental Figures S1-S12 and associated captions. (PDF 2260 kb)

31. Additional file 8: Figure S4. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

Author

Matetovici, Irina, Caljon, Guy, and Abbeele, Jan Van Den

Subjects
fungi, 3. Good health
Abstract

The JAK/STAT signaling pathway in tsetse fly. The yellow squares represent members of the pathway in Glossina morsitans genome; the hexagon constitutive negative regulator; the transparent figures indicate a transcript that had no reads or the orthologue was not annotated in the tsetse fly genome. A broken line designates not a clear interaction. (PDF 74Â kb)

32. Additional file 7: Figure S3. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

Author

Matetovici, Irina, Caljon, Guy, and Abbeele, Jan Van Den

Subjects
fungi, 3. Good health
Abstract

The Immune Deficiency (Imd) signaling pathway in tsetse fly. The yellow squares represent members of the pathway in Glossina morsitans genome; the triangle inducible negative regulator; the hexagon constitutive negative regulator; the transparent figures indicate a transcript that had no reads or the orthologue was not annotated in the tsetse fly genome. A broken line designates not a clear interaction. ROS: reactive oxygen species; DAP-PGN: diaminopimelic acid peptidoglycan; P-phosphorylation; Ub- ubiquitination. The part of the figure with pirk expression was adapted after [103]. (PDF 220Â kb)

33. Additional file 9: Figure S5. of Tsetse fly tolerance to T. brucei infection: transcriptome analysis of trypanosome-associated changes in the tsetse fly salivary gland

Author

Matetovici, Irina, Caljon, Guy, and Abbeele, Jan Van Den

Subjects
fungi, 3. Good health
Abstract

The Toll signaling pathway in tsetse fly. The yellow squares represent members of the pathway in Glossina morsitans genome; the hexagon constitutive negative regulator; the transparent figures indicate a transcript that had no reads or the orthologue was not annotated in the tsetse fly genome. (PDF 71Â kb)

34. Proxy comparison in ancient peat sediments: pollen, macrofossil and plant DNA.

Author

Parducci L, Väliranta M, Salonen JS, Ronkainen T, Matetovici I, Fontana SL, Eskola T, Sarala P, and Suyama Y

Subjects
Base Sequence, DNA, Plant classification, DNA, Plant history, Finland, History, Ancient, Molecular Sequence Data, Multiplex Polymerase Chain Reaction, Russia, Sequence Analysis, DNA methods, DNA, Plant genetics, Fossils, Geologic Sediments chemistry, Pollen genetics, Soil chemistry
Abstract

We compared DNA, pollen and macrofossil data obtained from Weichselian interstadial (age more than 40 kyr) and Holocene (maximum age 8400 cal yr BP) peat sediments from northern Europe and used them to reconstruct contemporary floristic compositions at two sites. The majority of the samples provided plant DNA sequences of good quality with success amplification rates depending on age. DNA and sequencing analysis provided five plant taxa from the older site and nine taxa from the younger site, corresponding to 7% and 15% of the total number of taxa identified by the three proxies together. At both sites, pollen analysis detected the largest (54) and DNA the lowest (10) number of taxa, but five of the DNA taxa were not detected by pollen and macrofossils. The finding of a larger overlap between DNA and pollen than between DNA and macrofossils proxies seems to go against our previous suggestion based on lacustrine sediments that DNA originates principally from plant tissues and less from pollen. At both sites, we also detected Quercus spp. DNA, but few pollen grains were found in the record, and these are normally interpreted as long-distance dispersal. We confirm that in palaeoecological investigations, sedimentary DNA analysis is less comprehensive than classical morphological analysis, but is a complementary and important tool to obtain a more complete picture of past flora., (© 2014 The Author(s) Published by the Royal Society. All rights reserved.)

Published
2015
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