Works matching AU Hugenholtz, Philip

Results: 142

Genomic Encyclopedia of Bacteria and Archaea: Sequencing a Myriad of Type Strains.

Published in:

PLoS Biology, 2014, v. 12, n. 8, p. 1, doi. 10.1371/journal.pbio.1001920

By:

Kyrpides, Nikos C.;
Hugenholtz, Philip;
Eisen, Jonathan A.;
Woyke, Tanja;
Göker, Markus;
Parker, Charles T.;
Amann, Rudolf;
Beck, Brian J.;
Chain, Patrick S. G.;
Chun, Jongsik;
Colwell, Rita R.;
Danchin, Antoine;
Dawyndt, Peter;
Dedeurwaerdere, Tom;
DeLong, Edward F.;
Detter, John C.;
De Vos, Paul;
Donohue, Timothy J.;
Dong, Xiu-Zhu;
Ehrlich, Dusko S.

Publication type:

Article

Evolutionary Relationships of Wild Hominids Recapitulated by Gut Microbial Communities.

Published in:

PLoS Biology, 2010, v. 8, n. 11, p. 1, doi. 10.1371/journal.pbio.1000546

By:

Ochman, Howard;
Worobey, Michael;
Chih-Horng Kuo;
Ndjango, Jean-Bosco N.;
Peeters, Martine;
Hahn, Beatrice H.;
Hugenholtz, Philip

Publication type:

Article

Bioenergy feedstock-specific enrichment of microbial populations during high-solids thermophilic deconstruction.

Published in:

Biotechnology & Bioengineering, 2011, v. 108, n. 9, p. 2088, doi. 10.1002/bit.23176

By:

Reddy, Amitha P.;
Allgaier, Martin;
Singer, Steven W.;
Hazen, Terry C.;
Simmons, Blake A.;
Hugenholtz, Philip;
VanderGheynst, Jean S.

Publication type:

Article

Microbial solutions must be deployed against climate catastrophe.

Published in:

2024

By:

Peixoto, Raquel;
Voolstra, Christian R.;
Stein, Lisa Y.;
Hugenholtz, Philip;
Salles, Joana Falcao;
Amin, Shady A.;
Häggblom, Max;
Gregory, Ann;
Makhalanyane, Thulani P.;
Wang, Fengping;
Agbodjato, Nadège Adoukè;
Wang, Yinzhao;
Jiao, Nianzhi;
Lennon, Jay T.;
Ventosa, Antonio;
Bavoil, Patrik M.;
Miller, Virginia;
Gilbert, Jack A.

Publication type:

Editorial

Phage Anti-Pycsar Proteins Efficiently Degrade β-Lactam Antibiotics.

Published in:

Applied Biosciences, 2024, v. 3, n. 4, p. 438, doi. 10.3390/applbiosci3040028

By:

Joshi, Pallav;
Krco, Stefan;
Davis, Samuel J.;
Asser, Lachlan;
Brück, Thomas;
Soo, Rochelle M.;
Bodén, Mikael;
Hugenholtz, Philip;
Wilson, Liam A.;
Schenk, Gerhard;
Morris, Marc T.

Publication type:

Article

Microbial solutions must be deployed against climate catastrophe.

Published in:

Communications Biology, 2024, v. 7, n. 1, p. 1, doi. 10.1038/s42003-024-07108-2

By:

Peixoto, Raquel;
Voolstra, Christian R.;
Stein, Lisa Y.;
Hugenholtz, Philip;
Salles, Joana Falcao;
Amin, Shady A.;
Häggblom, Max;
Gregory, Ann;
Makhalanyane, Thulani P.;
Wang, Fengping;
Agbodjato, Nadège Adoukè;
Wang, Yinzhao;
Jiao, Nianzhi;
Lennon, Jay T.;
Ventosa, Antonio;
Bavoil, Patrik M.;
Miller, Virginia;
Gilbert, Jack A.

Publication type:

Article

Near complete genome sequence of the animal feed probiotic, Bacillus amyloliquefaciens H57.

Published in:

Standards in Genomic Sciences, 2016, v. 11, p. 1, doi. 10.1186/s40793-016-0189-z

By:

Schofield, Benjamin J.;
Skarshewski, Adam;
Lachner, Nancy;
Ouwerkerk, Diane;
Klieve, Athol V.;
Dart, Peter;
Hugenholtz, Philip

Publication type:

Article

Introducing BASE: the Biomes of Australian Soil Environments soil microbial diversity database.

Published in:

GigaScience, 2016, v. 5, p. 1, doi. 10.1186/s13742-016-0126-5

By:

Bissett, Andrew;
Fitzgerald, Anna;
Meintjes, Thys;
Mele, Pauline M.;
Reith, Frank;
Dennis, Paul G.;
Breed, Martin F.;
Brown, Belinda;
Brown, Mark V.;
Brugger, Joel;
Byrne, Margaret;
Caddy-Retalic, Stefan;
Carmody, Bernie;
Coates, David J.;
Correa, Carolina;
Ferrari, Belinda C.;
Gupta, Vadakattu V. S. R.;
Hamonts, Kelly;
Haslem, Asha;
Hugenholtz, Philip

Publication type:

Article

Microbial solutions must be deployed against climate catastrophe.

Published in:

Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-53680-w

By:

Peixoto, Raquel;
Voolstra, Christian R.;
Stein, Lisa Y.;
Hugenholtz, Philip;
Salles, Joana Falcao;
Amin, Shady A.;
Häggblom, Max;
Gregory, Ann;
Makhalanyane, Thulani P.;
Wang, Fengping;
Agbodjato, Nadège Adoukè;
Wang, Yinzhao;
Jiao, Nianzhi;
Lennon, Jay T.;
Ventosa, Antonio;
Bavoil, Patrik M.;
Miller, Virginia;
Gilbert, Jack A.

Publication type:

Article

The DMSO Reductase Family of Microbial Molybdenum Enzymes; Molecular Properties and Role in the Dissimilatory Reduction of Toxic Elements.

Published in:

Geomicrobiology Journal, 2002, v. 19, n. 1, p. 3, doi. 10.1080/014904502317246138

By:

McEwan, Alastair G.;
Ridge, Justin P.;
McDevitt, Christopher A.;
Hugenholtz, Philip

Publication type:

Article

Broad spectrum antibiotic-degrading metallo-β-lactamases are phylogenetically diverse.

Published in:

2020

By:

Pedroso, Marcelo Monteiro;
Waite, David W.;
Melse, Okke;
Wilson, Liam;
Mitić, Nataša;
McGeary, Ross P.;
Antes, Iris;
Guddat, Luke W.;
Hugenholtz, Philip;
Schenk, Gerhard

Publication type:

Letter

Characterization of a highly efficient antibiotic-degrading metallo-β-lactamase obtained from an uncultured member of a permafrost community.

Published in:

Metallomics, 2017, v. 9, n. 8, p. 1157, doi. 10.1039/c7mt00195a

By:

Pedroso, Marcelo Monteiro;
Selleck, Christopher;
Enculescu, Charmaine;
Harmer, Jeffrey R.;
Mitić, Nataša;
Craig, Whitney R.;
Helweh, Waleed;
Hugenholtz, Philip;
Tyson, Gene W.;
Tierney, David L.;
Larrabee, James A.;
Schenk, Gerhard

Publication type:

Article

Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities.

Published in:

Nature Biotechnology, 2006, v. 24, n. 10, p. 1263, doi. 10.1038/nbt1247

By:

Martín, Héctor García;
Ivanova, Natalia;
Kunin, Victor;
Warnecke, Falk;
Barry, Kerrie W.;
McHardy, Alice C.;
Yeates, Christine;
He, Shaomei;
Salamov, Asaf A.;
Szeto, Ernest;
Dalin, Eileen;
Putnam, Nik H.;
Shapiro, Harris J.;
Pangilinan, Jasmyn L.;
Rigoutsos, Isidore;
Kyrpides, Nikos C.;
Blackall, Linda Louise;
McMahon, Katherine D.;
Hugenholtz, Philip

Publication type:

Article

CRISPR — a widespread system that provides acquired resistance against phages in bacteria and archaea.

Published in:

Nature Reviews Microbiology, 2008, v. 6, n. 3, p. 181, doi. 10.1038/nrmicro1793

By:

Sorek, Rotem;
Kunin, Victor;
Hugenholtz, Philip

Publication type:

Article

Evolution of the Hyaluronic Acid Synthesis ( has) Operon in Streptococcus zooepidemicus and Other Pathogenic Streptococci.

Published in:

Journal of Molecular Evolution, 2008, v. 67, n. 1, p. 13, doi. 10.1007/s00239-008-9117-1

By:

Blank, Lars M.;
Hugenholtz, Philip;
Nielsen, Lars K.

Publication type:

Article

Microbiology: Metagenomics.

Published in:

2008

By:

Hugenholtz, Philip;
Tyson, Gene W.

Publication type:

Question & Answer

Community structure and metabolism through reconstruction of microbial genomes from the environment.

Published in:

Nature, 2004, v. 428, n. 6978, p. 37, doi. 10.1038/nature02340

By:

Tyson, Gene W.;
Chapman, Jarrod;
Hugenholtz, Philip;
Allen, Eric E.;
Ram, Rachna J.;
Richardson, Paul M.;
Solovyev, Victor V.;
Rubin, Edward M.;
Rokhsar, Daniel S.;
Banfield, Jillian F.

Publication type:

Article

GTDB-Tk v2: memory friendly classification with the genome taxonomy database.

Published in:

Bioinformatics, 2022, v. 38, n. 23, p. 5315, doi. 10.1093/bioinformatics/btac672

By:

Chaumeil, Pierre-Alain;
Mussig, Aaron J;
Hugenholtz, Philip;
Parks, Donovan H

Publication type:

Article

Numbers and locations of native bacteria on field-grown wheat roots quantified by fluorescence in situ hybridization (FISH).

Published in:

Environmental Microbiology, 2006, v. 8, n. 5, p. 871, doi. 10.1111/j.1462-2920.2005.00973.x

By:

Watt, Michelle;
Hugenholtz, Philip;
White, Rosemary;
Vinall, Kerry

Publication type:

Article

Cultivation of globally distributed soil bacteria from phylogenetic lineages previously only detected in cultivation-independent surveys.

Published in:

Environmental Microbiology, 2002, v. 4, n. 11, p. 654, doi. 10.1046/j.1462-2920.2002.00352.x

By:

Sait, Michelle;
Hugenholtz, Philip;
Janssen, Peter H.

Publication type:

Article

In situ studies of the phylogeny and physiology of filamentous bacteria with attached growth.

Published in:

Environmental Microbiology, 2002, v. 4, n. 7, p. 383, doi. 10.1046/j.1462-2920.2002.00316.x

By:

Thomsen, Trine Rolighed;
Kjellerup, Birthe Venø;
Nielsen, Jeppe Lund;
Hugenholtz, Philip;
Nielsen, Per Halkjær

Publication type:

Article

Molecular analysis of dimethyl sulphide dehydrogenase from Rhodovulum sulfidophilum: its place in the dimethyl sulphoxide reductase family of microbial molybdopterin-containing enzymes.

Published in:

Molecular Microbiology, 2002, v. 44, n. 6, p. 1575, doi. 10.1046/j.1365-2958.2002.02978.x

By:

McDevitt, Christopher A;
Hugenholtz, Philip;
Hanson, Graeme R;
McEwan, Alastair G

Publication type:

Article

Grinder: a versatile amplicon and shotgun sequence simulator.

Published in:

Nucleic Acids Research, 2012, v. 40, n. 13, p. e94, doi. 10.1093/nar/gks251

By:

Angly, Florent E.;
Willner, Dana;
Rohwer, Forest;
Hugenholtz, Philip;
Tyson, Gene W.

Publication type:

Article

Grinder: a versatile amplicon and shotgun sequence simulator.

Published in:

Nucleic Acids Research, 2012, v. 40, n. 12, p. e94, doi. 10.1093/nar/gks251

By:

Angly, Florent E.;
Willner, Dana;
Rohwer, Forest;
Hugenholtz, Philip;
Tyson, Gene W.

Publication type:

Article

The Genomes On Line Database (GOLD) in 2009: status of genomic and metagenomic projectsand their associated metadata.

Published in:

Nucleic Acids Research, 2010, v. 38, p. D346, doi. 10.1093/nar/gkp848

By:

Liolios, Konstantinos;
Chen, I-Min A.;
Mavromatis, Konstantinos;
Tavernarakis, Nektarios;
Hugenholtz, Philip;
Markowitz, Victor M.;
Kyrpides, Nikos C.

Publication type:

Article

IMG/M: a data management and analysis system for metagenomes.

Published in:

Nucleic Acids Research, 2008, v. 36, p. D534

By:

Markowitz, Victor M.;
Ivanova, Natalia N.;
Szeto, Ernest;
Palaniappan, Krishna;
Chu, Ken;
Dalevi, Daniel;
Chen, I-Min A.;
Grechkin, Yuri;
Dubchak, Inna;
Anderson, Iain;
Lykidis, Athanasios;
Mavromatis, Konstantinos;
Hugenholtz, Philip;
Kyrpides, Nikos C.

Publication type:

Article

The Genomes On Line Database (GOLD) v.2: a monitor of genome projects worldwide.

Published in:

Nucleic Acids Research, 2006, v. 34, n. suppl 1, p. d332, doi. 10.1093/nar/gkj145

By:

Liolios, Konstantinos;
Tavernarakis, Nektarios;
Hugenholtz, Philip;
Kyrpides, Nikos C.

Publication type:

Article

The integrated microbial genomes (IMG) system.

Published in:

Nucleic Acids Research, 2006, v. 34, n. suppl 1, p. d344, doi. 10.1093/nar/gkj024

By:

Markowitz, Victor M.;
Korzeniewski, Frank;
Palaniappan, Krishna;
Szeto, Ernest;
Werner, Greg;
Padki, Anu;
Zhao, Xueling;
Dubchak, Inna;
Hugenholtz, Philip;
Anderson, Iain;
Lykidis, Athanasios;
Mavromatis, Konstantinos;
Ivanova, Natalia;
Kyrpides, Nikos C.

Publication type:

Article

Bellerophon: a program to detect chimeric sequences in multiple sequence alignments.

Published in:

Bioinformatics, 2004, v. 20, n. 14, p. 2317, doi. 10.1093/bioinformatics/bth226

By:

Thomas Huber;
Geoffrey Faulkner;
Philip Hugenholtz

Publication type:

Article

Secreted Toxins From Staphylococcus aureus Strains Isolated From Keratinocyte Skin Cancers Mediate Pro-tumorigenic Inflammatory Responses in the Skin.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2021.789042

By:

Krueger, Annika;
Zaugg, Julian;
Chisholm, Sarah;
Linedale, Richard;
Lachner, Nancy;
Teoh, Siok Min;
Tuong, Zewen K.;
Lukowski, Samuel W.;
Morrison, Mark;
Soyer, H. Peter;
Hugenholtz, Philip;
Hill, Michelle M.;
Frazer, Ian H.

Publication type:

Article

Evaluation of the Microba Community Profiler for Taxonomic Profiling of Metagenomic Datasets From the Human Gut Microbiome.

Published in:

Frontiers in Microbiology, 2021, v. 11, p. N.PAG, doi. 10.3389/fmicb.2021.643682

By:

Parks, Donovan H.;
Rigato, Fabio;
Vera-Wolf, Patricia;
Krause, Lutz;
Hugenholtz, Philip;
Tyson, Gene W.;
Wood, David L. A.

Publication type:

Article

Persistence and resistance: survival mechanisms of Candidatus Dormibacterota from nutrient‐poor Antarctic soils.

Published in:

2022

By:

Montgomery, Kate;
Williams, Timothy J.;
Brettle, Merryn;
Berengut, Jonathan F.;
Zhang, Eden;
Zaugg, Julian;
Hugenholtz, Philip;
Ferrari, Belinda C.

Publication type:

Correction Notice

Characterization of the juvenile koala gut microbiome across wild populations.

Published in:

Environmental Microbiology, 2022, v. 24, n. 9, p. 4209, doi. 10.1111/1462-2920.15884

By:

Blyton, Michaela D. J.;
Soo, Rochelle M.;
Hugenholtz, Philip;
Moore, Ben D.

Publication type:

Article

Maternal inheritance of the koala gut microbiome and its compositional and functional maturation during juvenile development.

Published in:

Environmental Microbiology, 2022, v. 24, n. 1, p. 475, doi. 10.1111/1462-2920.15858

By:

Blyton, Michaela D.J.;
Soo, Rochelle M.;
Hugenholtz, Philip;
Moore, Ben D.

Publication type:

Article

Persistence and resistance: survival mechanisms of Candidatus Dormibacterota from nutrient‐poor Antarctic soils.

Published in:

Environmental Microbiology, 2021, v. 23, n. 8, p. 4276, doi. 10.1111/1462-2920.15610

By:

Montgomery, Kate;
Williams, Timothy J.;
Brettle, Merryn;
Berengut, Jonathan F.;
Ray, Angelique E.;
Zhang, Eden;
Zaugg, Julian;
Hugenholtz, Philip;
Ferrari, Belinda C.

Publication type:

Article

The core root microbiome of sugarcanes cultivated under varying nitrogen fertilizer application.

Published in:

Environmental Microbiology, 2016, v. 18, n. 5, p. 1338, doi. 10.1111/1462-2920.12925

By:

Yeoh, Yun Kit;
Paungfoo ‐ Lonhienne, Chanyarat;
Dennis, Paul G.;
Robinson, Nicole;
Ragan, Mark A.;
Schmidt, Susanne;
Hugenholtz, Philip

Publication type:

Article

A call for standardized classification of metagenome projects.

Published in:

2010

By:

Ivanova, Natalia;
Tringe, Susannah G.;
Liolios, Konstantinos;
Wen-Tso Liu;
Morrison, Norman;
Hugenholtz, Philip;
Kyrpides, Nikos C.

Publication type:

Other

Metatranscriptomic array analysis of ‘ Candidatus Accumulibacter phosphatis’-enriched enhanced biological phosphorus removal sludge.

Published in:

Environmental Microbiology, 2010, v. 12, n. 5, p. 1205, doi. 10.1111/j.1462-2920.2010.02163.x

By:

Shaomei He;
Kunin, Victor;
Haynes, Matthew;
Martin, Hector Garcia;
Ivanova, Natalia;
Rohwer, Forest;
Hugenholtz, Philip;
McMahon, Katherine D.

Publication type:

Article

Wrinkles in the rare biosphere: pyrosequencing errors can lead to artificial inflation of diversity estimates.

Published in:

Environmental Microbiology, 2010, v. 12, n. 1, p. 118, doi. 10.1111/j.1462-2920.2009.02051.x

By:

Kunin, Victor;
Engelbrektson, Anna;
Ochman, Howard;
Hugenholtz, Philip

Publication type:

Article

Focus: Synergistetes.

Published in:

2009

By:

Hugenholtz, Philip;
Hooper, Sean D.;
Kyrpides, Nikos C.

Publication type:

Other

A changing of the guard.

Published in:

2009

By:

Hugenholtz, Philip;
Kyrpides, Nikos C.

Publication type:

Other

Environmental distribution and population biology of Candidatus Accumulibacter, a primary agent of biological phosphorus removal.

Published in:

Environmental Microbiology, 2008, v. 10, n. 10, p. 2692, doi. 10.1111/j.1462-2920.2008.01690.x

By:

Peterson, S. Brook;
Warnecke, Falk;
Madejska, Julita;
McMahon, Katherine D.;
Hugenholtz, Philip

Publication type:

Article

Riding giants.

Published in:

2007

By:

Hugenholtz, Philip

Publication type:

Other

Parameter Estimation and Species Tree Rooting Using ALE and GeneRax.

Published in:

Genome Biology & Evolution, 2023, v. 15, n. 7, p. 1, doi. 10.1093/gbe/evad134

By:

Williams, Tom A;
Davín, Adrián A;
Morel, Benoit;
Szánthó, Lénárd L;
Spang, Anja;
Stamatakis, Alexandros;
Hugenholtz, Philip;
Szöllősi, Gergely J

Publication type:

Article

An Expanded Genomic Representation of the Phylum Cyanobacteria.

Published in:

Genome Biology & Evolution, 2014, v. 6, n. 5, p. 1031, doi. 10.1093/gbe/evu073

By:

Soo, Rochelle M.;
Skennerton, Connor T.;
Sekiguchi, Yuji;
Imelfort, Michael;
Paech, Samuel J.;
Dennis, Paul G.;
Steen, Jason A.;
Parks, Donovan H.;
Tyson, Gene W.;
Hugenholtz, Philip

Publication type:

Article

A new species of Burkholderia isolated from sugarcane roots promotes plant growth.

Published in:

Microbial Biotechnology, 2014, v. 7, n. 2, p. 142, doi. 10.1111/1751-7915.12105

By:

Chanyarat Paungfoo-Lonhienne;
Lonhienne, Thierry G. A.;
Yun Kit Yeoh;
Webb, Richard I.;
Lakshmanan, Prakash;
Cheong Xin Chan;
Phaik-Eem Lim;
Ragan, Mark A.;
Schmidt, Susanne;
Hugenholtz, Philip

Publication type:

Article

Probiotic Bifidobacterium longum subsp. longum Protects against Cigarette Smoke-Induced Inflammation in Mice.

Published in:

International Journal of Molecular Sciences, 2023, v. 24, n. 1, p. 252, doi. 10.3390/ijms24010252

By:

Budden, Kurtis F.;
Gellatly, Shaan L.;
Vaughan, Annalicia;
Amorim, Nadia;
Horvat, Jay C.;
Hansbro, Nicole G.;
Wood, David L. A.;
Hugenholtz, Philip;
Dennis, Paul G.;
Wark, Peter A. B.;
Hansbro, Philip M.

Publication type:

Article

A long-awaited taxogenomic investigation of the family Halomonadaceae.

Published in:

Frontiers in Microbiology, 2023, p. 01, doi. 10.3389/fmicb.2023.1293707

By:

de la Haba, Rafael R.;
Arahal, David R.;
Sánchez-Porro, Cristina;
Chuvochina, Maria;
Wittouck, Stijn;
Hugenholtz, Philip;
Ventosa, Antonio

Publication type:

Article

Comparative Genomic Analysis of the Class Epsilonproteobacteria and Proposed Reclassification to Epsilonbacteraeota (phyl. nov.).

Published in:

Frontiers in Microbiology, 2017, v. 8, p. 1, doi. 10.3389/fmicb.2017.00682

By:

Waite, David W.;
Vanwonterghem, Inka;
Rinke, Christian;
Parks, Donovan H.;
Ying Zhang;
Ken Takai;
Sievert, Stefan M.;
Simon, Jörg;
Campbell, Barbara J.;
Hanson, Thomas E.;
Woyke, Tanja;
Klotz, Martin G.;
Hugenholtz, Philip

Publication type:

Article

Continuous pre- and post-transplant exposure to a disease-associated gut microbiome promotes hyper-acute graft-versus-host disease in wild-type mice.

Published in:

Gut Microbes, 2020, v. 11, n. 4, p. 754, doi. 10.1080/19490976.2019.1705729

By:

Bowerman, Kate L;
Varelias, Antiopi;
Lachner, Nancy;
Kuns, Rachel D;
Hill, Geoffrey R;
Hugenholtz, Philip

Publication type:

Article