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Start Over Author "Sam Pitluck" Publisher american society for microbiology
21 results on '"Sam Pitluck"'

1. Genome Sequence of Streptomyces viridosporus Strain T7A ATCC 39115, a Lignin-Degrading Actinomycete

Author

Jennifer R. Davis, James Han, Jason K. Sello, Lin Peters, Ioanna Pagani, Roxanne Tapia, Cliff Han, Victor Markowitz, Lynne Goodwin, Natalia Mikhailova, Chris Detter, Hazuki Teshima, Matt Nolan, Amy Chen, Miriam Land, Galina Ovchinnikova, Sam Pitluck, Marcel Huntemann, Ernest Szeto, Natalia Ivanova, Tanja Woyke, Chia-Lin Wei, Nikos C. Kyrpides, Amrita Pati, and Kostas Mavrommatis

Subjects
Whole genome sequencing, 0303 health sciences, Strain (chemistry), 030306 microbiology, fungi, food and beverages, Biomass, Context (language use), Biology, biology.organism_classification, complex mixtures, 7. Clean energy, Genome, 03 medical and health sciences, chemistry.chemical_compound, chemistry, Botany, Genetics, Lignin, Prokaryotes, Microbial biodegradation, Molecular Biology, Bacteria, 030304 developmental biology
Abstract

We announce the availability of the genome sequence of Streptomyces viridosporus strain T7A ATCC 39115, a plant biomass-degrading actinomycete. This bacterium is of special interest because of its capacity to degrade lignin, an underutilized component of plants in the context of bioenergy. It has a full complement of genes for plant biomass catabolism.

Published
2013

2. Complete Genome Sequence of the Hyperthermophilic Sulfate-Reducing Bacterium Thermodesulfobacterium geofontis OPF15 T

Author

Karen W. Davenport, James Han, Cliff S. Han, Scott D. Hamilton-Brehm, Sam Pitluck, John C. Detter, Roxanne Tapia, Lynne Goodwin, Nikos C. Kyrpides, Natalia Mikhailova, James Elkins, Alla Lapidus, Robert W. Cottingham, Tanja Woyke, Loren Hauser, David G Bruce, Susan Lucas, Natalia Ivanova, Jan Fang Cheng, Lin Peters, Ioanna Pagani, and Miriam Land

Subjects
Genetics, Whole genome sequencing, biology, Ecology, biology.organism_classification, Genome, Thermodesulfobacterium geofontis, chemistry.chemical_compound, chemistry, Prokaryotes, Sulfate, Molecular Biology, Bacteria
Abstract

Thermodesulfobacterium geofontis OPF15 T (ATCC BAA-2454, JCM 18567) was isolated from Obsidian Pool, Yellowstone National Park, and grows optimally at 83°C. The 1.6-Mb genome sequence was finished at the Joint Genome Institute and has been deposited for future genomic studies pertaining to microbial processes and nutrient cycles in high-temperature environments.

Published
2013

3. Draft Genome Sequence of Frankia sp. Strain QA3, a Nitrogen-Fixing Actinobacterium Isolated from the Root Nodule of Alnus nitida

Author

David Bruce, Shweta Deshpande, Tanja Woyke, Maher Gtari, Patrick Chain, Sam Pitluck, Lynne Goodwin, Subarna Thakur, Marcel Huntemann, Karen W. Davenport, Ernest Szeto, Teal Furnholm, Saubashya Sur, Nicholas Beauchemin, James Han, Hazuki Teshima, Nikos C. Kyrpides, Imen Nouioui, Amrita Pati, Kostas Mavrommatis, Arnab Sen, Faten Ghodbhane-Gtari, Matt Nolan, Miriam Land, Cliff S. Han, Victor Markowitz, Chris Detter, Luis Gabriel Wall, Fernando Tavares, Natalia Ivanova, Ioanna Pagani, Jessie Wishart, Amy Chen, Catarina L. Santos, and Louis S. Tisa

Subjects
Whole genome sequencing, Root nodule, Strain (chemistry), fungi, Biology, Alnus nitida, Microbiology, Frankia sp, Symbiosis, Botany, Genetics, Nitrogen fixation, Prokaryotes, Actinorhizal plant, Molecular Biology
Abstract

Members of the actinomycete genus Frankia form a nitrogen-fixing symbiosis with 8 different families of actinorhizal plants. We report a high-quality draft genome sequence for Frankia sp. strain QA3, a nitrogen-fixing actinobacterium isolated from root nodules of Alnus nitida.

Published
2013

4. Draft Genome Sequence of Frankia sp. Strain CN3, an Atypical, Noninfective (Nod – ) Ineffective (Fix – ) Isolate from Coriaria nepalensis

Author

Victor Markowitz, Lynne Goodwin, Amrita Pati, Sam Pitluck, Subarna Thakur, Kostas Mavrommatis, Maher Gtari, Saubashya Sur, Miriam Land, Luis Gabriel Wall, Catarina L. Santos, Matt Nolan, Imen Nouioui, Nikos C. Kyrpides, James Han, Louis S. Tisa, Hazuki Teshima, Marcel Huntemann, Ernest Szeto, Shweta Deshpande, Chris Detter, Tanja Woyke, Patrick S. G. Chain, Ioanna Pagani, Fernando Tavares, Amy Chen, David Bruce, Natalia Ivanova, Cliff Han, Arnab Sen, Karen W. Davenport, Faten Ghodhbane-Gtari, Nicholas Beauchemin, and Teal Furnholm

Subjects
Whole genome sequencing, Lineage (genetic), biology, Strain (biology), Frankia, biology.organism_classification, Genome, Microbiology, Symbiosis, Genetics, Prokaryotes, Coriaria nepalensis, Actinorhizal plant, Molecular Biology
Abstract

We report here the genome sequence of Frankia sp. strain CN3, which was isolated from Coriaria nepalensis . This genome sequence is the first from the fourth lineage of Frankia , strains of which are unable to reinfect actinorhizal plants. At 10 Mb, it represents the largest Frankia genome sequenced to date.

Published
2013

5. Complete Genome of Serratia sp. Strain FGI 94, a Strain Associated with Leaf-Cutter Ant Fungus Gardens

Author

Sam Pitluck, Patrick S. G. Chain, Daniel M. Tremmel, Karen W. Davenport, Gabriel J. Starrett, Cameron R. Currie, James Han, Ioanna Pagani, Shweta Deshpande, Hazuki Teshima, Cliff Han, Amrita Pati, Matt Nolan, Marcel Huntemann, Kostas Mavrommatis, Victor Markowitz, Lynne Goodwin, Chris Detter, Nikos C. Kyrpides, Tanja Woyke, Amy Chen, Frank O. Aylward, David Bruce, and Natalia Ivanova

Subjects
Mutualism (biology), 0303 health sciences, biology, 030306 microbiology, fungi, Atta colombica, food and beverages, Fungus, biochemical phenomena, metabolism, and nutrition, biology.organism_classification, Genome, ANT, Microbiology, 03 medical and health sciences, Botany, Biomass degradation, Genetics, behavior and behavior mechanisms, Prokaryotes, Molecular Biology, Serratia sp, 030304 developmental biology
Abstract

Serratia sp. strain FGI 94 was isolated from a fungus garden of the leaf-cutter ant Atta colombica . Analysis of its 4.86-Mbp chromosome will help advance our knowledge of symbiotic interactions and plant biomass degradation in this ancient ant-fungus mutualism.

Published
2013

6. Whole Genome Sequencing of Thermus oshimai JL-2 and Thermus thermophilus JL-18, Incomplete Denitrifiers from the United States Great Basin

Author

Marcel Huntemann, Ernest Szeto, Victor Markowitz, Amy Chen, Sam Pitluck, Lynne Goodwin, Hazuki Teshima, Nikos C. Kyrpides, Jeremy A. Dodsworth, Konstantinos Mavrommatis, Natalia Ivanova, James Han, Lin Peters, Ioanna Pagani, Cliff Han, Tracy Erkkila, Chia-Lin Wei, Jenny Lam, Brian P. Hedlund, Senthil K. Murugapiran, Tanja Woyke, Austin I. McDonald, John C. Detter, and Amrita Pati

Subjects
inorganic chemicals, Whole genome sequencing, Genetics, 0303 health sciences, biology, Strain (chemistry), 030306 microbiology, Circular bacterial chromosome, food and beverages, Thermus oshimai, Thermus thermophilus, biology.organism_classification, enzymes and coenzymes (carbohydrates), 03 medical and health sciences, Plasmid, bacteria, Prokaryotes, Molecular Biology, Gene, 030304 developmental biology
Abstract

The strains Thermus oshimai JL-2 and Thermus thermophilus JL-18 each have a circular chromosome, 2.07 Mb and 1.9 Mb in size, respectively, and each has two plasmids ranging from 0.27 Mb to 57.2 kb. The megaplasmid of each strain contains a gene cluster for the reduction of nitrate to nitrous oxide, consistent with their incomplete denitrification phenotypes.

Published
2013

7. Complete Genome of Enterobacteriaceae Bacterium Strain FGI 57, a Strain Associated with Leaf-Cutter Ant Fungus Gardens

Author

Daniel M. Tremmel, Nikos C. Kyrpides, Cliff S. Han, Karen Davenport, Chris Detter, Tanja Woyke, Victor M. Markowitz, Marcel Huntemann, Patrick S. G. Chain, Lynne Goodwin, James Han, Amy Chen, Kostas Mavrommatis, David C. Bruce, Cameron R. Currie, Ioanna Pagani, Sam Pitluck, Matt Nolan, Natalia Ivanova, Amrita Pati, Shweta Deshpande, and Frank O. Aylward

Subjects
0303 health sciences, biology, 030306 microbiology, Strain (biology), fungi, technology, industry, and agriculture, Atta colombica, food and beverages, Fungus, biology.organism_classification, Enterobacteriaceae bacterium strain FGI 57, Genome, ANT, 03 medical and health sciences, Community dynamics, Biomass degradation, Botany, Genetics, population characteristics, Prokaryotes, Molecular Biology, geographic locations, 030304 developmental biology
Abstract

The Enterobacteriaceae bacterium strain FGI 57 was isolated from a fungus garden of the leaf-cutter ant Atta colombica . Analysis of its single 4.76-Mbp chromosome will shed light on community dynamics and plant biomass degradation in ant fungus gardens.

Published
2013

8. Complete Genome Sequences of Desulfosporosinus orientis DSM765T, Desulfosporosinus youngiae DSM17734T, Desulfosporosinus meridiei DSM13257T, and Desulfosporosinus acidiphilus DSM22704T

Author

Michael Pester, Evelyne Brambilla, Didier Alazard, Thomas Rattei, Thomas Weinmaier, James Han, Lucas, Susan M., Alla Lapidus, Jan-Fang Cheng, Lynne Goodwin, Sam Pitluck, Lin Peters, Galina Ovchinnikova, Hazuki Teshima, James Chris Detter, Han, Cliff S., Roxanne Tapia, Land, Miriam L., Loren Hauser, Kyrpides, Nikos C., Ivanova, Natalia N., Ioanna Pagani, Marcel Huntmann, Chia-Lin Wei, Davenport, Karen W., Hajnalka Daligault, Chain, Patrick S. G., Amy Chen, Konstantinos Mavromatis, Victor Markowitz, Ernest Szeto, Natalia Mikhailova, Amrita Pati, Michael Wagner, Tanja Woyke, Bernard Ollivier, Hans Peter Klenk, Stefan Spring, and Alexander Loy

Subjects
DNA, Bacterial, Species Specificity, Peptococcaceae, Molecular Sequence Data, Genome, Bacterial, Genome Announcements
Abstract

Desulfosporosinus species are sulfate-reducing bacteria belonging to the Firmicutes. Their genomes will give insights into the genetic repertoire and evolution of sulfate reducers typically thriving in terrestrial environments and able to degrade toluene (Desulfosporosinus youngiae), to reduce Fe(III) (Desulfosporosinus meridiei, Desulfosporosinus orientis), and to grow under acidic conditions (Desulfosporosinus acidiphilus).

Published
2012

9. Genome Sequence of 'Candidatus Frankia datiscae' Dg1, the Uncultured Microsymbiont from Nitrogen-Fixing Root Nodules of the Dicot Datisca glomerata

Author

Alison M. Berry, Natalia Ivanova, James Han, Amrita Pati, David Bruce, David R. Benson, Roxanne Tapia, Petar Pujic, Len A. Pennacchio, Chris Detter, Hazuki Teshima, Sam Pitluck, Shunsheng Han, Tomas Persson, Matt Nolan, Miriam Land, Olga Chertkov, Katharina Pawlowski, Tanja Woyke, Philippe Normand, Brian Vanden Heuvel, Laboratoire d'Ecologie Microbienne - UMR 5557 (LEM), Institut National de la Recherche Agronomique (INRA)-Université Claude Bernard Lyon 1 (UCBL), and Université de Lyon-Université de Lyon-Centre National de la Recherche Scientifique (CNRS)-VetAgro Sup - Institut national d'enseignement supérieur et de recherche en alimentation, santé animale, sciences agronomiques et de l'environnement (VAS)-Ecole Nationale Vétérinaire de Lyon (ENVL)

Subjects
Root nodule, [SDV]Life Sciences [q-bio], Frankia, Molecular Sequence Data, Microbiology, 03 medical and health sciences, Magnoliopsida, Nitrogen Fixation, Cucurbitales, Botany, Datisca glomerata, Symbiosis, Molecular Biology, 030304 developmental biology, 0303 health sciences, biology, Base Sequence, 030306 microbiology, Rosales, biology.organism_classification, Genome Announcements, Nitrogen fixation, Candidatus, Actinorhizal plant, Root Nodules, Plant, Genome, Bacterial
Abstract

Members of the noncultured clade of Frankia enter into root nodule symbioses with actinorhizal species from the orders Cucurbitales and Rosales. We report the genome sequence of a member of this clade originally from Pakistan but obtained from root nodules of the American plant Datisca glomerata without isolation in culture.

Published
2011

10. Complete Genome Sequence of the Marine Cellulose- and Xylan-Degrading Bacterium Glaciecolasp. Strain 4H-3-7+YE-5▿

Author

Miriam Land, Chris Detter, Matt Nolan, Sam Pitluck, Karen W. Davenport, Roxanne Tapia, Shunsheng Han, Martin Keller, Koki Horikoshi, Barbara Klippel, Adriane Lochner, James Han, Sigrid Wiebusch, Len A. Pennacchio, Natalia Mikhailova, Alexander Basner, Lynne Goodwin, Garabed Antranikian, Tanja Woyke, Fumiyoshi Abe, and David Bruce

Subjects
Geologic Sediments, Glycoside Hydrolases, Hydrolases, Molecular Sequence Data, Alteromonadaceae, Microbiology, Genome, chemistry.chemical_compound, Japan, Glycoside hydrolase, Cellulose, Molecular Biology, Whole genome sequencing, biology, Strain (chemistry), food and beverages, biology.organism_classification, Xylan, Genome Announcements, Biodegradation, Environmental, chemistry, Biochemistry, Xylans, Bacteria, Genome, Bacterial
Abstract

Glaciecola sp. strain 4H-3-7+YE-5 was isolated from subseafloor sediments at Suruga Bay in Japan and is capable of efficiently hydrolyzing cellulose and xylan. The complete genome sequence of Glaciecola sp. 4H-3-7+YE-5 revealed several genes encoding putatively novel glycoside hydrolases, offering a high potential for plant biomass degradation.

Published
2011

11. Complete Genome Sequence of the Cellulose-Degrading Bacterium Cellulosilyticum lentocellum▿

Author

Chris Detter, Garret Suen, Cliff Han, Loren Hauser, Susan Lucas, Roxanne Tapia, Alex Copeland, Hazuki Teshima, Cameron R. Currie, Alla Lapidus, David Bruce, Esther R. Angert, Linda Meincke, Jan-Feng Cheng, Lynne Goodwin, Miriam Land, David Miller, Sam Pitluck, Tanja Woyke, and Brian G. Fox

Subjects
Paper, Geologic Sediments, Gram-Positive Endospore-Forming Rods, Firmicutes, Molecular Sequence Data, Industrial Waste, Microbiology, Waste Disposal, Fluid, Clostridia, chemistry.chemical_compound, Rivers, Cellulose, Molecular Biology, Whole genome sequencing, Comparative genomics, biology, Nucleic acid sequence, Molecular Sequence Annotation, biology.organism_classification, Genome Announcements, RNA, Bacterial, chemistry, Bacteria, Genome, Bacterial, Water Pollutants, Chemical
Abstract

Cellulosilyticum lentocellum DSM 5427 is an anaerobic, endospore-forming member of the Firmicutes . We describe the complete genome sequence of this cellulose-degrading bacterium, which was originally isolated from estuarine sediment of a river that received both domestic and paper mill waste. Comparative genomics of cellulolytic clostridia will provide insight into factors that influence degradation rates.

Published
2011

12. Complete Genome Sequence of the Thermophilic, Piezophilic, Heterotrophic Bacterium Marinitoga piezophila KA3

Author

Tanja Woyke, Lin Peters, Ioanna Pagani, Natalia Mikhailova, Nikos C. Kyrpides, Pauline Vannier, John C. Detter, Mohamed Jebbar, James Han, Phil M. Oger, Jan Fang Cheng, Miriam Land, Kenneth M. Noll, Roxanne Tapia, Susan Lucas, Hazuki Teshima, Lynne Goodwin, Douglas H. Bartlett, Cliff Han, Loren Hauser, Natalia Ivanova, Alla Lapidus, Sam Pitluck, Department of Energy / Joint Genome Institute (DOE), Los Alamos National Laboratory (LANL), Bioscience Division [Los Alamos], Oak Ridge National Laboratory [Oak Ridge] (ORNL), UT-Battelle, LLC, Laboratoire de microbiologie des environnements extrêmophiles (LM2E), Centre National de la Recherche Scientifique (CNRS)-Université de Brest (UBO)-Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER), Laboratoire de Sciences de la Terre (LST), Centre National de la Recherche Scientifique (CNRS)-Institut national des sciences de l'Univers (INSU - CNRS)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-École normale supérieure - Lyon (ENS Lyon), Scripps Institution of Oceanography (SIO), University of California [San Diego] (UC San Diego), University of California-University of California, Department of Molecular and Cell Biology, University of Connecticut (UCONN), Institut Français de Recherche pour l'Exploitation de la Mer (IFREMER)-Université de Brest (UBO)-Centre National de la Recherche Scientifique (CNRS), École normale supérieure de Lyon (ENS de Lyon)-Université Claude Bernard Lyon 1 (UCBL), Université de Lyon-Université de Lyon-Institut national des sciences de l'Univers (INSU - CNRS)-Centre National de la Recherche Scientifique (CNRS), Scripps Institution of Oceanography (SIO - UC San Diego), and University of California (UC)-University of California (UC)

Subjects
DNA, Bacterial, Sequence analysis, Molecular Sequence Data, ved/biology.organism_classification_rank.species, Biology, Marinitoga piezophila, Microbiology, Genome, 03 medical and health sciences, Hydrothermal Vents, Plasmid, Seawater, Anaerobiosis, Organic Chemicals, Molecular Biology, 030304 developmental biology, Whole genome sequencing, Genetics, 0303 health sciences, Pacific Ocean, Bacteria, 030306 microbiology, ved/biology, Thermophile, Circular bacterial chromosome, Temperature, Nucleic acid sequence, Sequence Analysis, DNA, Chromosomes, Bacterial, 6. Clean water, Genome Announcements, [SDE]Environmental Sciences, Oxidation-Reduction, Genome, Bacterial, Sulfur, Plasmids
Abstract

Marinitoga piezophila KA3 is a thermophilic, anaerobic, chemoorganotrophic, sulfur-reducing bacterium isolated from the Grandbonum deep-sea hydrothermal vent site at the East Pacific Rise (13°N, 2,630-m depth). The genome of M. piezophila KA3 comprises a 2,231,407-bp circular chromosome and a 13,386-bp circular plasmid. This genome was sequenced within Department of Energy Joint Genome Institute CSP 2010.

Published
2012

13. Complete Genome Sequence of Desulfurococcus fermentans, a Hyperthermophilic Cellulolytic Crenarchaeon Isolated from a Freshwater Hot Spring in Kamchatka, Russia

Author

Elizaveta A. Bonch-Osmolovskaya, Venkat Gopalan, Lin Peters, Dwi Susanti, Todd M. Lowe, Patricia P. Chan, Jan Fang Cheng, Nikos C. Kyrpides, Eric F. Johnson, Alla Lapidus, Lynne Goodwin, Haruyuki Atomi, Tanja Woyke, Anna A. Perevalova, Loren Hauser, Konstantinos Mavrommatis, Susan Lucas, Jason R. Rodriguez, Miriam Land, Sam Pitluck, Iain Anderson, Biswarup Mukhopadhyay, and James Han

Subjects
Hydrogenase, Sequence analysis, Molecular Sequence Data, Fresh Water, Microbiology, Genome, Hot Springs, Russia, chemistry.chemical_compound, Genome, Archaeal, Anaerobiosis, Cellulose, Molecular Biology, Whole genome sequencing, Hot spring, biology, Desulfurococcaceae, Sequence Analysis, DNA, biology.organism_classification, Genome Announcements, DNA, Archaeal, Biochemistry, chemistry, Fermentation, Carbohydrate Metabolism, DNA, Hydrogen
Abstract

Desulfurococcus fermentans is the first known cellulolytic archaeon. This hyperthermophilic and strictly anaerobic crenarchaeon produces hydrogen from fermentation of various carbohydrates and peptides without inhibition by accumulating hydrogen. The complete genome sequence reported here suggested that D. fermentans employs membrane-bound hydrogenases and novel glycohydrolases for hydrogen production from cellulose.

Published
2012

14. Complete Genome Sequence of Rahnella aquatilis CIP 78.65

Author

James Han, Sam Pitluck, Miriam Land, Matt Nolan, Natalia Mikhailova, Lynne Goodwin, Chris Detter, Robert J. Martinez, Roxanne Tapia, Tanja Woyke, David Bruce, Len A. Pennacchio, Cliff Han, Brittany Held, and Patricia A. Sobecky

Subjects
Whole genome sequencing, Base Sequence, Drinking Water, Molecular Sequence Data, Water source, Biology, Microbiology, Genome Announcements, Resistant bacteria, Rahnella, Rahnella aquatilis, Base sequence, France, Molecular Biology, Genome, Bacterial
Abstract

Rahnella aquatilis CIP 78.65 is a gammaproteobacterium isolated from a drinking water source in Lille, France. Here we report the complete genome sequence of Rahnella aquatilis CIP 78.65, the type strain of R. aquatilis .

Published
2012

15. Genome Sequence of Amycolatopsis sp. Strain ATCC 39116, a Plant Biomass-Degrading Actinomycete

Author

Jason K. Sello, James Han, Roxanne Tapia, J. Chris Detter, Tanja Woyke, Miriam Land, Sam Pitluck, Natalia Mikhailova, Shunsheng Han, Hazuki Teshima, Matt Nolan, Jennifer R. Davis, Lynne Goodwin, and David Bruce

Subjects
DNA, Bacterial, Microorganism, Molecular Sequence Data, Biomass, Biology, complex mixtures, Microbiology, Genome, chemistry.chemical_compound, Botany, Lignin, Molecular Biology, Whole genome sequencing, Strain (biology), fungi, food and beverages, Gene Expression Regulation, Bacterial, Chromosomes, Bacterial, Plants, Biodegradation, Genome Announcements, Actinobacteria, Biodegradation, Environmental, chemistry, Biofuel, Genome, Bacterial
Abstract

We announce the availability of a high-quality draft of the genome sequence of Amycolatopsis sp. strain 39116, one of few bacterial species that are known to consume the lignin component of plant biomass. This genome sequence will further ongoing efforts to use microorganisms for the conversion of plant biomass into fuels and high-value chemicals.

Published
2012

16. High-Quality Draft Genome Sequence of the Opitutaceae Bacterium Strain TAV1, a Symbiont of the Wood-Feeding Termite Reticulitermes flavipes

Author

Tanja Woyke, Marcel Huntemann, Ernest Szeto, Natalia Ivanova, Matt Nolan, Len A. Pennacchio, Lynne Goodwin, Roxanne Tapia, Amy Chen, Jantiya Isanapong, David Bruce, Amrita Pati, Miriam Land, Sam Pitluck, Jorge L. M. Rodrigues, James Han, Konstantinos Mavromatis, Cliff Han, Brittany Held, and Chris Detter

Subjects
Whole genome sequencing, biology, Strain (biology), Molecular Sequence Data, Verrucomicrobia, Hindgut, Gene Expression Regulation, Bacterial, Isoptera, biology.organism_classification, Microbiology, Genome Announcements, Reticulitermes, Bacterial Proteins, Symbiosis, Botany, Nitrogen fixation, Animals, Molecular Biology, Gene, Genome, Bacterial
Abstract

Microbial communities in the termite hindgut are essential for degrading plant material. We present the high-quality draft genome sequence of the Opitutaceae bacterium strain TAV1, the first member of the phylum Verrucomicrobia to be isolated from wood-feeding termites. The genomic analysis reveals genes coding for lignocellulosic degradation and nitrogen fixation.

Published
2012

17. Complete Genome Sequence of Rahnella sp. Strain Y9602, a Gammaproteobacterium Isolate from Metal- and Radionuclide-Contaminated Soil

Author

Len A. Pennacchio, Brittany Held, Miriam Land, Tanja Woyke, Roxanne Tapia, Chris Detter, Patricia A. Sobecky, James Han, David Bruce, Cliff Han, Lynne Goodwin, Robert J. Martinez, Matt Nolan, Natalia Mikhailova, and Sam Pitluck

Subjects
Molecular Sequence Data, Phosphatase, Biology, complex mixtures, Microbiology, Mineralization (biology), Metal, chemistry.chemical_compound, Soil Pollutants, Molecular Biology, Soil Microbiology, Radioisotopes, Whole genome sequencing, Radionuclide, Base Sequence, Uranium phosphate, Soil contamination, Genome Announcements, chemistry, Metals, visual_art, visual_art.visual_art_medium, Rahnella, Soil microbiology, Genome, Bacterial
Abstract

Rahnella sp. strain Y9602 is a gammaproteobacterium isolated from contaminated subsurface soils that is capable of promoting uranium phosphate mineralization as a result of constitutive phosphatase activity. Here we report the first complete genome sequence of an isolate belonging to the genus Rahnella .

Published
2012

18. Genome Sequence of Kosmotoga olearia Strain TBF 19.5.1, a Thermophilic Bacterium with a Wide Growth Temperature Range, Isolated from the Troll B Oil Platform in the North Sea

Author

David Bruce, Tanja Woyke, Matt Nolan, Kristen S. Swithers, Natalia Mikhailova, Sam Pitluck, Shunsheng Han, Roxanne Tapia, Jonathan L. DiPippo, Len A. Pennacchio, Lynne Goodwin, Christopher Detter, J. Peter Gogarten, Camilla L. Nesbø, Kenneth M. Noll, James Han, and Miriam Land

Subjects
Whole genome sequencing, Genetics, Hydrogenase, Bacteria, biology, Thermophile, Strain (biology), Molecular Sequence Data, Temperature, biology.organism_classification, Microbiology, Genome Announcements, Petroleum, North Sea, Mobile genetic elements, Molecular Biology, Gene, Mesophile
Abstract

Kosmotoga olearia strain TBF 19.5.1 is a member of the Thermotogales that grows best at 65°C and very well even at 37°C. Information about this organism is important for understanding the evolution of mesophiles from thermophiles. Its genome sequence reveals extensive gene gains and a large content of mobile genetic elements. It also contains putative hydrogenase genes that have no homologs in the other member of the Thermotogales .

Published
2011

19. Genome Sequence of the Mercury-Methylating and Pleomorphic Desulfovibrio africanus Strain Walvis Bay

Author

Amy M. Kucken, Craig C. Brandt, Tanja Woyke, Cliff Han, Miriam Land, Steven D. Brown, John C. Detter, James Han, Mircea Podar, Susan Lucas, Anthony V. Palumbo, Hazuki Teshima, Matt Nolan, Len A. Pennacchio, Cynthia C. Gilmour, Dwayne A. Elias, Sam Pitluck, Judy D. Wall, and Lynne Goodwin

Subjects
Whole genome sequencing, Geologic Sediments, Base Sequence, Desulfovibrio africanus, Molecular Sequence Data, chemistry.chemical_element, Methylation, Methylmercury Compounds, Biology, biology.organism_classification, Namibia, Microbiology, Desulfovibrio, Genome Announcements, Mercury (element), chemistry.chemical_compound, chemistry, Molecular Biology, Bay, Methylmercury, Genome, Bacterial, Bacteria
Abstract

Desulfovibrio africanus strain Walvis Bay is an anaerobic sulfate-reducing bacterium capable of producing methylmercury (MeHg), a potent human neurotoxin. The mechanism of methylation by this and other organisms is unknown. We present the 4.2-Mb genome sequence to provide further insight into microbial mercury methylation and sulfate-reducing bacteria.

Published
2011

20. Complete Genome Sequence of the Thermophilic Bacterium Exiguobacterium sp. AT1b

Author

Eileen Dalin, Susan Lucas, Alex Copeland, Thomas Brettin, Christie Hendrix, Galina Ovchinnikova, Alla Lapidus, David Bruce, Tijana Glavina del Rio, Cliff Han, Loren Hauser, Sam Pitluck, Sophia Kathariou, James M. Tiedje, Paul G. Richardson, Robert F. Ramaley, Debora F. Rodrigues, J. Chris Detter, Nikos C. Kyrpides, Elizabeth Saunders, Lynne Goodwin, Hope Tice, Frank W. Larimer, Tatiana A. Vishnivetskaya, and Miriam Land

Subjects
DNA, Bacterial, Whole genome sequencing, Bacillales, Hot Temperature, Thermophile, Strain (biology), Molecular Sequence Data, Nucleic acid sequence, Sequence Analysis, DNA, Biology, biology.organism_classification, Microbiology, Genome, Genome Announcements, Microbial ecology, Genus, Environmental Microbiology, Molecular Biology, Genome, Bacterial, Bacteria
Abstract

Here we present the genome of strain Exiguobacterium sp. AT1b, a thermophilic member of the genus Exiguobacterium whose representatives were isolated from various environments along a thermal and physicochemical gradient. This genome was sequenced to be a comparative resource for the study of thermal adaptation with a psychroactive representative of the genus, Exiguobacterium sibiricum strain 255-15, that was previously sequenced by the U.S. Department of Energy's (DOE's) Joint Genome Institute (JGI) ( http://genome.ornl.gov/microbial/exig/ ).

Published
2011

21. Genome Sequence of 'Pedosphaera parvula' Ellin514, an Aerobic Verrucomicrobial Isolate from Pasture Soil

Author

Frank W. Larimer, Lynne Goodwin, Thomas Brettin, Ravi Kant, Eileen Dalin, Hauke Smidt, John C. Detter, Peter H. Janssen, Susan Lucas, Parveen Sangwan, Willem M. de Vos, Airi Palva, Sam Pitluck, Alla Lapidus, David Bruce, Olga Chertkov, Mark W. J. van Passel, Alex Copeland, Tijana Glavina del Rio, Loren Hauser, Hope Tice, Shunsheng Han, and Miriam Land

Subjects
DNA, Bacterial, Molecular Sequence Data, Biology, Bacterial Physiological Phenomena, Microbiology, Pasture, Phylum Verrucomicrobia, 03 medical and health sciences, Microbiologie, Botany, Systems and Synthetic Biology, Molecular Biology, Soil Microbiology, VLAG, 030304 developmental biology, Whole genome sequencing, Systeem en Synthetische Biologie, 0303 health sciences, geography, WIMEK, geography.geographical_feature_category, Bacteria, 030306 microbiology, Ecology, Sequence Analysis, DNA, cell, 15. Life on land, biology.organism_classification, Aerobiosis, Genome Announcements, Soil water, Pedosphaera parvula, Soil microbiology, Genome, Bacterial
Abstract

“ Pedosphaera parvula ” Ellin514 is an aerobically grown verrucomicrobial isolate from pasture soil. It is one of the few cultured representatives of subdivision 3 of the phylum Verrucomicrobia . Members of this group are widespread in terrestrial environments.

Published
2011

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