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Select item 69374071.

Metagenome-wide association study of gut microbiome revealed novel aetiology of rheumatoid arthritis in the Japanese population

Toshihiro Kishikawa, Yuichi Maeda, Takuro Nii, Daisuke Motooka, Yuki Matsumoto, Masato Matsushita, Hidetoshi Matsuoka, Maiko Yoshimura, Shoji Kawada, Satoru Teshigawara, Eri Oguro, Yasutaka Okita, Keisuke Kawamoto, Shinji Higa, Toru Hirano, Masashi Narazaki, Atsushi Ogata, Yukihiko Saeki, Shota Nakamura, Hidenori Inohara, Atsushi Kumanogoh, Kiyoshi Takeda, Yukinori Okada

Ann Rheum Dis. 2020 Jan; 79(1): 103–111. Published online 2019 Nov 7. doi: 10.1136/annrheumdis-2019-215743

PMCID:: PMC6937407

Article PDF–5.4M

Select item 67385822.

Baseline human gut microbiota profile in healthy people and standard reporting template

Charles H. King, Hiral Desai, Allison C. Sylvetsky, Jonathan LoTempio, Shant Ayanyan, Jill Carrie, Keith A. Crandall, Brian C. Fochtman, Lusine Gasparyan, Naila Gulzar, Paul Howell, Najy Issa, Konstantinos Krampis, Lopa Mishra, Hiroki Morizono, Joseph R. Pisegna, Shuyun Rao, Yao Ren, Vahan Simonyan, Krista Smith, Sharanjit VedBrat, Michael D. Yao, Raja Mazumder

PLoS One. 2019; 14(9): e0206484. Published online 2019 Sep 11. doi: 10.1371/journal.pone.0206484

PMCID:: PMC6738582

Article PDF–2.6M

Select item 66401183.

Can Targeting Non-Contiguous V-Regions With Paired-End Sequencing Improve 16S rRNA-Based Taxonomic Resolution of Microbiomes?: An In Silico Evaluation

Nishal Kumar Pinna, Anirban Dutta, Mohammed Monzoorul Haque, Sharmila S. Mande

Front Genet. 2019; 10: 653. Published online 2019 Jul 12. doi: 10.3389/fgene.2019.00653

PMCID:: PMC6640118

Article PDF–4.4M

Select item 62653094.

The Fecal Metagenomics of Malayan Pangolins Identifies an Extensive Adaptation to Myrmecophagy

Jing-E Ma, Hai-Ying Jiang, Lin-Miao Li, Xiu-Juan Zhang, Guan-Yu Li, Hui-Ming Li, Xue-Jun Jin, Jin-Ping Chen

Front Microbiol. 2018; 9: 2793. Published online 2018 Nov 23. doi: 10.3389/fmicb.2018.02793

PMCID:: PMC6265309

Article PDF–2.9M

Select item 61587255.

Molecular Alteration Analysis of Human Gut Microbial Composition in Graves' disease Patients

Hafiz Muhammad Ishaq, Imran Shair Mohammad, Muhammad Shahzad, Chaofeng Ma, Muhammad Asif Raza, Xiaokang Wu, Hui Guo, Peijie Shi, Jiru Xu

Int J Biol Sci. 2018; 14(11): 1558–1570. Published online 2018 Sep 7. doi: 10.7150/ijbs.24151

PMCID:: PMC6158725

Article PDF–1.1M

Select item 61555096.

Green forage and fattening duration differentially modulate cecal microbiome of Wanxi white geese

Xingyong Chen, Xue Liu, Yeye Du, Bin Wang, Ning Zhao, Zhaoyu Geng

PLoS One. 2018; 13(9): e0204210. Published online 2018 Sep 25. doi: 10.1371/journal.pone.0204210

PMCID:: PMC6155509

Article PDF–5.1M

Select item 60935637.

Effects of spray-dried porcine plasma on fecal microbiota in nursery pigs

Huyen Tran, Christopher L Anderson, Justin W Bundy, Samodha C Fernando, Phillip S Miller, Thomas E Burkey

J Anim Sci. 2018 Mar; 96(3): 1017–1031. Published online 2018 Jan 27. doi: 10.1093/jas/skx034

PMCID:: PMC6093563

Article PDF–7.2M

Select item 60455978.

Probiotics in human gut microbiota can degrade host glycosaminoglycans

Keigo Kawai, Reiko Kamochi, Sayoko Oiki, Kousaku Murata, Wataru Hashimoto

Sci Rep. 2018; 8: 10674. Published online 2018 Jul 13. doi: 10.1038/s41598-018-28886-w

PMCID:: PMC6045597

Article PDF–2.1M

Select item 58029139.

The application of rumen simulation technique (RUSITEC) for studying dynamics of the bacterial community and metabolome in rumen fluid and the effects of a challenge with Clostridium perfringens

Stefanie U. Wetzels, Melanie Eger, Marion Burmester, Lothar Kreienbrock, Amir Abdulmawjood, Beate Pinior, Martin Wagner, Gerhard Breves, Evelyne Mann

PLoS One. 2018; 13(2): e0192256. Published online 2018 Feb 7. doi: 10.1371/journal.pone.0192256

PMCID:: PMC5802913

Article PDF–4.7M

Select item 575872510.

Machine Learning Leveraging Genomes from Metagenomes Identifies Influential Antibiotic Resistance Genes in the Infant Gut Microbiome

Sumayah F. Rahman, Matthew R. Olm, Michael J. Morowitz, Jillian F. Banfield

mSystems. 2018 Jan-Feb; 3(1): e00123-17. Published online 2018 Jan 9. doi: 10.1128/mSystems.00123-17

PMCID:: PMC5758725

Article PDF–1.7M

Select item 575199811.

Noncontiguous finished genome sequence and description of Mediterranea massiliensis gen. nov., sp. nov., a new member of the Bacteroidaceae family isolated from human colon

I.I. Ngom, M. Mailhe, D. Ricaboni, V. Vitton, A. Benezech, S. Khelaifia, C. Michelle, F. Cadoret, N. Armstrong, A. Levasseur, D. Raoult, M. Million

New Microbes New Infect. 2018 Jan; 21: 105–116. Published online 2017 Dec 5. doi: 10.1016/j.nmni.2017.11.009

Expression of Concern in:: New Microbes New Infect. 2024 Jun; 59: 101361.

PMCID:: PMC5751998

Article PDF–1.6M

Select item 567263312.

Indoleacrylic acid produced by commensal Peptostreptococcus species suppresses inflammation

Marta Wlodarska, Chengwei Luo, Raivo Kolde, Eva d’Hennezel, John W. Annand, Cortney E. Heim, Philipp Krastel, Esther K. Schmitt, Abdifatah S. Omar, Elizabeth A. Creasey, Ashley L. Garner, Sina Mohammadi, Daniel J. O’Connell, Sahar Abubucker, Timothy D. Arthur, Eric A. Franzosa, Curtis Huttenhower, Leon O. Murphy, Henry J. Haiser, Hera Vlamakis, Jeffrey A. Porter, Ramnik J. Xavier

Cell Host Microbe. Author manuscript; available in PMC 2018 Jul 12.

Published in final edited form as: Cell Host Microbe. 2017 Jul 12; 22(1): 25–37.e6. doi: 10.1016/j.chom.2017.06.007

PMCID:: PMC5672633

Article PDF–1.2M

Select item 549982613.

Novel clades of the HU/IHF superfamily point to unexpected roles in the eukaryotic centrosome, chromosome partitioning, and biologic conflicts

A. Maxwell Burroughs, Gurmeet Kaur, Dapeng Zhang, L. Aravind

Cell Cycle. 2017; 16(11): 1093–1103. Published online 2017 Apr 25. doi: 10.1080/15384101.2017.1315494

PMCID:: PMC5499826

Article PDF–1.3M

Select item 516772914.

Genome-Based Taxonomic Classification of Bacteroidetes

Richard L. Hahnke, Jan P. Meier-Kolthoff, Marina García-López, Supratim Mukherjee, Marcel Huntemann, Natalia N. Ivanova, Tanja Woyke, Nikos C. Kyrpides, Hans-Peter Klenk, Markus Göker

Front Microbiol. 2016; 7: 2003. Published online 2016 Dec 20. doi: 10.3389/fmicb.2016.02003

Correction in:: Front Microbiol. 2018; 9: 304.

PMCID:: PMC5167729

Article PDF–7.3M

Select item 493248315.

‘Mediterranea massiliensis’ gen. nov., sp. nov., a new human-associated bacterium isolated from the right and left colon lavage of a 58-year-old patient

M. Mailhe, D. Ricaboni, A. Benezech, S. Khelaifia, P.-E. Fournier, D. Raoult

New Microbes New Infect. 2016 Sep; 13: 54–55. Published online 2016 Jun 6. doi: 10.1016/j.nmni.2016.06.002

Correction in:: New Microbes New Infect. 2019 Jul; 30: 100522.

Expression of Concern in:: New Microbes New Infect. 2024 Jun; 59: 101351.

PMCID:: PMC4932483

Article PDF–188K

Select item 489560116.

Computational prediction of CRISPR cassettes in gut metagenome samples from Chinese type-2 diabetic patients and healthy controls

Tatiana C. Mangericao, Zhanhao Peng, Xuegong Zhang

BMC Syst Biol. 2016; 10(Suppl 1): 5. Published online 2016 Jan 11. doi: 10.1186/s12918-015-0248-x

PMCID:: PMC4895601

Article PDF–329K

Select item 483009217.

Analysis of the microbiome: Advantages of whole genome shotgun versus 16S amplicon sequencing

Ravi Ranjan, Asha Rani, Ahmed Metwally, Halvor S. McGee, David L. Perkins

Biochem Biophys Res Commun. Author manuscript; available in PMC 2017 Jan 22.

Published in final edited form as: Biochem Biophys Res Commun. 2016 Jan 22; 469(4): 967–977. Published online 2015 Dec 22. doi: 10.1016/j.bbrc.2015.12.083

PMCID:: PMC4830092

Article PDF–2.1M

Select item 425308218.

Seasonally variable intestinal metagenomes of the red palm weevil (Rhynchophorus ferrugineus)

Shangang Jia, Xiaowei Zhang, Guangyu Zhang, An Yin, Sun Zhang, Fusen Li, Lei Wang, Duojun Zhao, Quanzheng Yun, Tala, Jixiang Wang, Gaoyuan Sun, Mohammed Baabdullah, Xiaoguang Yu, Songnian Hu, Ibrahim S Al-Mssallem, Jun Yu

Environ Microbiol. 2013 Nov; 15(11): 3020–3029. Published online 2013 Oct 9. doi: 10.1111/1462-2920.12262

PMCID:: PMC4253082

Article PDF–488K

Select item 418082719.

Improved Assemblies Using a Source-Agnostic Pipeline for MetaGenomic Assembly by Merging (MeGAMerge) of Contigs

Matthew Scholz, Chien-Chi Lo, Patrick S. G. Chain

Sci Rep. 2014; 4: 6480. Published online 2014 Oct 1. doi: 10.1038/srep06480

PMCID:: PMC4180827

Article PDF–719K

Select item 407349020.

Evidence of Extensive DNA Transfer between Bacteroidales Species within the Human Gut

Michael J. Coyne, Naamah Levy Zitomersky, Abigail Manson McGuire, Ashlee M. Earl, Laurie E. Comstock

mBio. 2014 May-Jun; 5(3): e01305-14. Published online 2014 Jun 17. doi: 10.1128/mBio.01305-14

PMCID:: PMC4073490

Article PDF–575K

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