Works by Whitman, William B.

Results: 59

Uniting the classification of cultured and uncultured bacteria and archaea using 16S rRNA gene sequences.

Published in:

Nature Reviews Microbiology, 2014, v. 12, n. 9, p. 635, doi. 10.1038/nrmicro3330

By:

Yarza, Pablo;
Yilmaz, Pelin;
Pruesse, Elmar;
Glöckner, Frank Oliver;
Ludwig, Wolfgang;
Schleifer, Karl-Heinz;
Whitman, William B.;
Euzéby, Jean;
Amann, Rudolf;
Rosselló-Móra, Ramon

Publication type:

Article

The ecological coherence of high bacterial taxonomic ranks.

Published in:

Nature Reviews Microbiology, 2010, v. 8, n. 7, p. 523, doi. 10.1038/nrmicro2367

By:

Philippot, Laurent;
Andersson, Siv G. E.;
Battin, Tom J.;
Prosser, James I.;
Schimel, Joshua P.;
Whitman, William B.;
Hallin, Sara

Publication type:

Article

Why and how to use the SeqCode.

Published in:

mLife, 2024, v. 3, n. 1, p. 1, doi. 10.1002/mlf2.12092

By:

Whitman, William B.;
Chuvochina, Maria;
Hedlund, Brian P.;
Konstantinidis, Konstantinos T.;
Palmer, Marike;
Rodriguez‐R, Luis M.;
Sutcliffe, Iain;
Wang, Fengping

Publication type:

Article

Draft genome sequences of Bradyrhizobium shewense sp. nov. ERR11T and Bradyrhizobium yuanmingense CCBAU 10071T.

Published in:

Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0283-x

By:

Aserse, Aregu Amsalu;
Woyke, Tanja;
Kyrpides, Nikos C.;
Whitman, William B.;
Lindström, Kristina

Publication type:

Article

Draft genome sequence of type strain HBR26T and description of Rhizobium aethiopicum sp. nov.

Published in:

Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0220-z

By:

Aserse, Aregu Amsalu;
Woyke, Tanja;
Kyrpides, Nikos C.;
Whitman, William B.;
Lindström, Kristina

Publication type:

Article

High-quality-draft genome sequence of the fermenting bacterium Anaerobium acetethylicum type strain GluBS11T (DSM 29698).

Published in:

Standards in Genomic Sciences, 2017, v. 12, p. 1, doi. 10.1186/s40793-017-0236-4

By:

Patil, Yogita;
Müller, Nicolai;
Schink, Bernhard;
Whitman, William B.;
Huntemann, Marcel;
Clum, Alicia;
Pillay, Manoj;
Palaniappan, Krishnaveni;
Varghese, Neha;
Mikhailova, Natalia;
Stamatis, Dimitrios;
Reddy, T. B. K.;
Daum, Chris;
Shapiro, Nicole;
Ivanova, Natalia;
Kyrpides, Nikos;
Woyke, Tanja;
Junghare, Madan

Publication type:

Article

A Flexible System for Cultivation of Methanococcus and Other Formate-Utilizing Methanogens.

Published in:

Archaea, 2017, p. 1, doi. 10.1155/2017/7046026

By:

Long, Feng;
Wang, Liangliang;
Lupa, Boguslaw;
Whitman, William B.

Publication type:

Article

The archaeal RNA chaperone TRAM0076 shapes the transcriptome and optimizes the growth of Methanococcus maripaludis.

Published in:

PLoS Genetics, 2019, v. 15, n. 8, p. 1, doi. 10.1371/journal.pgen.1008328

By:

Li, Jie;
Zhang, Bo;
Zhou, Liguang;
Qi, Lei;
Yue, Lei;
Zhang, Wenting;
Cheng, Huicai;
Whitman, William B.;
Dong, Xiuzhu

Publication type:

Article

Drought-induced variability in dissolved organic matter composition in a marsh-dominated estuary.

Published in:

Geophysical Research Letters, 2015, v. 42, n. 15, p. 6446, doi. 10.1002/2015GL064653

By:

Medeiros, Patricia M.;
Seidel, Michael;
Dittmar, Thorsten;
Whitman, William B.;
Moran, Mary Ann

Publication type:

Article

Detection of Lateral Gene Transfer Events in the Prokaryotic tRNA Synthetases by the Ratios of Evolutionary Distances Method.

Published in:

Journal of Molecular Evolution, 2004, v. 58, n. 5, p. 615, doi. 10.1007/s00239-004-2582-2

By:

Farahi, Kamyar;
Pusch, Gordon D.;
Overbeek, Ross;
Whitman, William B.

Publication type:

Article

Tindallia californiensis sp. nov., a new anaerobic, haloalkaliphilic, spore-forming acetogen isolated from Mono Lake in California.

Published in:

Extremophiles, 2003, v. 7, n. 4, p. 327, doi. 10.1007/s00792-003-0326-7

By:

Pikuta, Elena V.;
Hoover, Richard B.;
Bej, Asim K.;
Marsic, Damien;
Detkova, Ekaterina N.;
Whitman, William B.;
Krader, Paul

Publication type:

Article

Genome sequence of Silicibacter pomeroyi reveals adaptations to the marine environment.

Published in:

Nature, 2004, v. 432, n. 7019, p. 910, doi. 10.1038/nature03170

By:

Moran, Mary Ann;
Buchan, Alison;
González, José M.;
Heidelberg, John F.;
Whitman, William B.;
Kiene, Ronald P.;
Henriksen, James R.;
King, Gary M.;
Belas, Robert;
Fuqua, Clay;
Brinkac, Lauren;
Lewis, Matt;
Johri, Shivani;
Weaver, Bruce;
Pai, Grace;
Eisen, Jonathan A.;
Rahe, Elisha;
Sheldon, Wade M.;
Ye, Wenying;
Miller, Todd R.

Publication type:

Article

Bacterial community of very wet and acidic subalpine forest and fire-induced grassland soils.

Published in:

Plant & Soil, 2010, v. 332, n. 1/2, p. 417, doi. 10.1007/s11104-010-0308-3

By:

Yu-Te Lin;
Ching-Ping Lin;
Shu-Miaw Chaw;
Whitman, William B.;
Coleman, David C.;
Chih-Yu Chiu

Publication type:

Article

Biochemical and genetic characterization of an early step in a novel pathway for the biosynthesis of aromatic amino acids and p-aminobenzoic acid in the archaeon Methanococcus maripaludis.

Published in:

Molecular Microbiology, 2006, v. 62, n. 4, p. 1117, doi. 10.1111/j.1365-2958.2006.05426.x

By:

Porat, Iris;
Sieprawska-Lupa, Magdalena;
Teng, Quincy;
Bohanon, Fredrick J.;
White, Robert H.;
Whitman, William B.

Publication type:

Article

Genetics of Methanococcus: possibilities for functional genomics in Archaea.

Published in:

Molecular Microbiology, 1999, v. 33, n. 1, p. 1, doi. 10.1046/j.1365-2958.1999.01463.x

By:

Tumbula, Debra L;
Whitman, William B

Publication type:

Article

Development of genetic approaches for the...

Published in:

Biofactors, 1997, v. 6, n. 1, p. 37, doi. 10.1002/biof.5520060105

By:

Whitman, William B.;
Tumbula, Debra L.

Publication type:

Article

The Nbp35/ApbC homolog acts as a nonessential [4Fe‐4S] transfer protein in methanogenic archaea.

Published in:

FEBS Letters, 2020, v. 594, n. 5, p. 924, doi. 10.1002/1873-3468.13673

By:

Zhao, Cuiping;
Lyu, Zhe;
Long, Feng;
Akinyemi, Taiwo;
Manakongtreecheep, Kasidet;
Söll, Dieter;
Whitman, William B.;
Vinyard, David J.;
Liu, Yuchen

Publication type:

Article

The putative tRNA 2-thiouridine synthetase Ncs6 is an essential sulfur carrier in Methanococcus maripaludis.

Published in:

FEBS Letters, 2014, v. 588, n. 6, p. 873, doi. 10.1016/j.febslet.2014.01.065

By:

Liu, Yuchen;
Long, Feng;
Wang, Liangliang;
Söll, Dieter;
Whitman, William B.

Publication type:

Article

Phylogenomics-based reclassifications in the genus Psychrobacter including emended descriptions of Psychrobacter pacificensis, Psychrobacter proteolyticus and Psychrobacter submarinus.

Published in:

Antonie van Leeuwenhoek, 2023, v. 116, n. 11, p. 1113, doi. 10.1007/s10482-023-01871-8

By:

Kaur, Jasvinder;
Sood, Utkarsh;
Talwar, Chandni;
Whitman, William B.;
Lal, Rup

Publication type:

Article

Frigoriflavimonas asaccharolytica gen. nov., sp. nov., a novel psychrophilic esterase and protease producing bacterium isolated from Antarctica.

Published in:

Antonie van Leeuwenhoek, 2021, v. 114, n. 12, p. 1991, doi. 10.1007/s10482-021-01656-x

By:

Menes, Rodolfo Javier;
Machin, Eliana V.;
Roldán, Diego M.;
Kyrpides, Nikos;
Woyke, Tanja;
Whitman, William B.;
Busse, Hans-Jürgen

Publication type:

Article

Sphingomonas palmae sp. nov. and Sphingomonas gellani sp. nov., endophytically associated phyllosphere bacteria isolated from economically important crop plants.

Published in:

Antonie van Leeuwenhoek, 2020, v. 113, n. 11, p. 1617, doi. 10.1007/s10482-020-01468-5

By:

Madhaiyan, Munusamy;
Saravanan, Venkatakrishnan Sivaraj;
Wirth, Joseph S.;
Alex, Tan Hian Hwee;
Kim, Soo-Jin;
Weon, Hang-Yeon;
Kwon, Soon-Wo;
Whitman, William B.;
Ji, Lianghui

Publication type:

Article

An efficient method for synthesizing dimethylsulfonio‐34S‐propionate hydrochloride from 34S8.

Published in:

Journal of Labelled Compounds & Radiopharmaceuticals, 2019, v. 62, n. 1, p. 52, doi. 10.1002/jlcr.3696

By:

Wirth, Joseph S.;
Whitman, William B.

Publication type:

Article

RED-T: utilizing the Ratios of Evolutionary Distances for determination of alternative phylogenetic events.

Published in:

Bioinformatics, 2003, v. 19, n. 16, p. 2152, doi. 10.1093/bioinformatics/btg284

By:

Kamyar Farahi;
William B. Whitman;
Eileen T. Kraemer

Publication type:

Article

Genomic Metrics Applied to Rhizobiales (Hyphomicrobiales): Species Reclassification, Identification of Unauthentic Genomes and False Type Strains.

Published in:

Frontiers in Microbiology, 2021, v. 11, p. N.PAG, doi. 10.3389/fmicb.2021.614957

By:

Volpiano, Camila Gazolla;
Sant'Anna, Fernando Hayashi;
Ambrosini, Adriana;
de São José, Jackson Freitas Brilhante;
Beneduzi, Anelise;
Whitman, William B.;
de Souza, Emanuel Maltempi;
Lisboa, Bruno Brito;
Vargas, Luciano Kayser;
Passaglia, Luciane Maria Pereira

Publication type:

Article

Identifying labile DOM components in a coastal ocean through depleted bacterial transcripts and chemical signals.

Published in:

Environmental Microbiology, 2018, v. 20, n. 8, p. 3012, doi. 10.1111/1462-2920.14344

By:

Vorobev, Alexey;
Sharma, Shalabh;
Yu, Mengyun;
Lee, Juhyung;
Washington, Benjamin J.;
Whitman, William B.;
Ballantyne, IV, Ford;
Medeiros, Patricia M.;
Moran, Mary Ann

Publication type:

Article

Sulfur metabolism in archaea reveals novel processes.

Published in:

Environmental Microbiology, 2012, v. 14, n. 10, p. 2632, doi. 10.1111/j.1462-2920.2012.02783.x

By:

Liu, Yuchen;
Beer, Laura L.;
Whitman, William B.

Publication type:

Article

K-shuff: A Novel Algorithm for Characterizing Structural and Compositional Diversity in Gene Libraries.

Published in:

PLoS ONE, 2016, v. 11, n. 12, p. 1, doi. 10.1371/journal.pone.0167634

By:

Jangid, Kamlesh;
Kao, Ming-Hung;
Lahamge, Aishwarya;
Williams, Mark A.;
Rathbun, Stephen L.;
Whitman, William B.

Publication type:

Article

Expression of divergent methyl/alkyl coenzyme M reductases from uncultured archaea.

Published in:

Communications Biology, 2022, v. 5, n. 1, p. 1, doi. 10.1038/s42003-022-04057-6

By:

Shao, Nana;
Fan, Yu;
Chou, Chau-Wen;
Yavari, Shadi;
Williams, Robert V.;
Amster, I. Jonathan;
Brown, Stuart M.;
Drake, Ian J.;
Duin, Evert C.;
Whitman, William B.;
Liu, Yuchen

Publication type:

Article

Evolution of Dimethylsulfoniopropionate Metabolism in Marine Phytoplankton and Bacteria.

Published in:

Frontiers in Microbiology, 2017, p. 1, doi. 10.3389/fmicb.2017.00637

By:

Bullock, Hannah A.;
Haiwei Luo;
Whitman, William B.

Publication type:

Article

Functional response of the soil microbial community to biochar applications.

Published in:

GCB Bioenergy, 2021, v. 13, n. 1, p. 269, doi. 10.1111/gcbb.12773

By:

Xu, Wenhuan;
Whitman, William B.;
Gundale, Michael J.;
Chien, Chuan‐Chi;
Chiu, Chih‐Yu

Publication type:

Article

Structures of dimethylsulfoniopropionate-dependent demethylase from the marine organism Pelagabacter ubique.

Published in:

Protein Science: A Publication of the Protein Society, 2012, v. 21, n. 2, p. 289, doi. 10.1002/pro.2015

By:

Schuller, David J.;
Reisch, Chris R.;
Moran, Mary Ann;
Whitman, William B.;
Lanzilotta, William N.

Publication type:

Article

Small RNAs expressed during dimethylsulfoniopropionate degradation by a model marine bacterium.

Published in:

Environmental Microbiology Reports, 2016, v. 8, n. 5, p. 763, doi. 10.1111/1758-2229.12437

By:

Burns, Andrew S.;
Bullock, Hannah A.;
Smith, Christa;
Huang, Qiuyuan;
Whitman, William B.;
Moran, Mary Ann

Publication type:

Article

Ecological divergence of syntopic marine bacterial species is shaped by gene content and expression.

Published in:

ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2023, v. 17, n. 6, p. 813, doi. 10.1038/s41396-023-01390-4

By:

Nowinski, Brent;
Feng, Xiaoyuan;
Preston, Christina M.;
Birch, James M.;
Luo, Haiwei;
Whitman, William B.;
Moran, Mary Ann

Publication type:

Article

The influences of thorny bamboo growth on the bacterial community in badland soils of southwestern Taiwan.

Published in:

Land Degradation & Development, 2018, v. 29, n. 8, p. 2728, doi. 10.1002/ldr.2966

By:

Lin, Yu‐Te;
Whitman, William B.;
Coleman, David C.;
Shiau, Yo‐Jin;
Jien, Shih‐Hao;
Chiu, Chih‐Yu

Publication type:

Article

Metabolism of dimethylsulphoniopropionate by Ruegeria pomeroyi DSS-3.

Published in:

Molecular Microbiology, 2013, v. 89, n. 4, p. 774, doi. 10.1111/mmi.12314

By:

Reisch, Chris R.;
Crabb, Warren M.;
Gifford, Scott M.;
Teng, Quincy;
Stoudemayer, Melissa J.;
Moran, Mary Ann;
Whitman, William B.

Publication type:

Article

Changes in Microbial Functional Diversity and Activity in Paddy Soils Irrigated with Industrial Wastewaters in Bandung, West Java Province, Indonesia.

Published in:

Water, Air & Soil Pollution, 2011, v. 217, n. 1-4, p. 491, doi. 10.1007/s11270-010-0603-x

By:

Chaerun, Siti Khodijah;
Pangesti, Nurmi P. D.;
Toyota, Koki;
Whitman, William B.

Publication type:

Article

Metabolic, Phylogenetic, and Ecological Diversity of the Methanogenic Archaea.

Published in:

Annals of the New York Academy of Sciences, 2008, v. 1125, p. 171, doi. 10.1196/annals.1419.019

By:

Liu, Yuchen;
Whitman, William B.

Publication type:

Article

Bacterial Community Diversity in Undisturbed Perhumid Montane Forest Soils in Taiwan.

Published in:

Microbial Ecology, 2010, v. 59, n. 2, p. 369, doi. 10.1007/s00248-009-9574-0

By:

Yu-Te Lin;
Yu-Ju Huang;
Sen-Lin Tang;
Whitman, William B.;
Coleman, David C.;
Chih-Yu Chiu

Publication type:

Article

The Diverse Bacterial Community in Intertidal, Anaerobic Sediments at Sapelo Island, Georgia.

Published in:

Microbial Ecology, 2009, v. 58, n. 2, p. 244, doi. 10.1007/s00248-008-9481-9

By:

Lasher, Chris;
Dyszynski, Glen;
Everett, Karin;
Edmonds, Jennifer;
Wenying Ye;
Sheldon, Wade;
Shiyao Wang;
Joye, Samantha B.;
Moran, Mary Ann;
Whitman, William B.

Publication type:

Article

The importance of porE and porF in the anabolic pyruvate oxidoreductase of Methanococcus maripaludis.

Published in:

Archives of Microbiology, 2004, v. 181, n. 1, p. 68, doi. 10.1007/s00203-003-0629-1

By:

Lin, Winston;
Whitman, William B.

Publication type:

Article

The anabolic pyruvate oxidoreductase from Methanococcus maripaludis.

Published in:

Archives of Microbiology, 2003, v. 179, n. 6, p. 444, doi. 10.1007/s00203-003-0554-3

By:

Lin, Winston C.;
Yu-Ling Yang;
Whitman, William B.

Publication type:

Article

Intracellular pyruvate flux in the methane-producing archaeon Methanococcus maripaludis.

Published in:

Archives of Microbiology, 2002, v. 178, n. 6, p. 493, doi. 10.1007/s00203-002-0480-9

By:

Yu-Ling Yang;
Glushka, John N.;
Whitman, William B.

Publication type:

Article

Request for public discussion and ballot to amend SeqCode rules on priority of Candidatus names and correction of typographic and orthographic errors.

Published in:

ISME Communications, 2023, v. 3, n. 1, p. 1, doi. 10.1038/s43705-023-00303-y

By:

Whitman, William B.;
Hedlund, Brian P.;
Palmer, Marike;
Sutcliffe, Iain;
Chuvochina, Maria

Publication type:

Article

Draft genome ofRosenbergiella nectareastrain 8N4Tprovides insights into thepotential role of this species in its planthost.

Published in:

PeerJ, 2020, p. 1, doi. 10.7717/peerj.8822

By:

Laviad-Shitrit, Sivan;
Izhaki, Ido;
Whitman, William B.;
Shapiro, Nicole;
Woyke, Tanja;
Kyrpides, Nikos C.;
Halpern, Malka

Publication type:

Article

Soil bacterial community succession during long-term ecosystem development.

Published in:

Molecular Ecology, 2013, v. 22, n. 12, p. 3415, doi. 10.1111/mec.12325

By:

Jangid, Kamlesh;
Whitman, William B.;
Condron, Leo M.;
Turner, Benjamin L.;
Williams, Mark A.

Publication type:

Article

Internal transcription termination widely regulates differential expression of operon-organized genes including ribosomal protein and RNA polymerase genes in an archaeon.

Published in:

Nucleic Acids Research, 2023, v. 51, n. 15, p. 7851, doi. 10.1093/nar/gkad575

By:

Zhang, Wenting;
Ren, Derong;
Li, Zhihua;
Yue, Lei;
Whitman, William B;
Dong, Xiuzhu;
Li, Jie

Publication type:

Article

Structural basis for tRNA-dependent cysteine biosynthesis.

Published in:

Nature Communications, 2017, v. 8, n. 1, p. 1, doi. 10.1038/s41467-017-01543-y

By:

Meirong Chen;
Koji Kato;
Yume Kubo;
Tanaka, Yoshikazu;
Yuchen Liu;
Feng Long;
Whitman, William B.;
Lill, Pascal;
Gatsogiannis, Christos;
Raunser, Stefan;
Shimizu, Nobutaka;
Shinoda, Akira;
Nakamura, Akiyoshi;
Tanaka, Isao;
Min Yao

Publication type:

Article

Expression Vectors for Methanococcus maripaludis: Overexpression of Acetohydroxyacid Synthase....

Published in:

Genetics, 1999, v. 152, n. 4, p. 1439, doi. 10.1093/genetics/152.4.1439

By:

Gardner, Warren L.;
Whitman, William B.

Publication type:

Article

Isolation of Acetate Auxotrophs of the Methane-Producing Archaeon Methanococcus maripaludis by....

Published in:

Genetics, 1999, v. 152, n. 4, p. 1429, doi. 10.1093/genetics/152.4.1429

By:

Kim, Wonduck;
Whitman, William B.

Publication type:

Article

What Archaea Have to Tell Biologists.

Published in:

Genetics, 1999, v. 152, n. 4, p. 1245, doi. 10.1093/genetics/152.4.1245

By:

Whitman, William B.;
Pfeifer, Felicitas

Publication type:

Article