Works matching DE "MICROBIAL genomes"

Results: 1038

Impact of microbiological molecular methodologies on adaptive sampling using nanopore sequencing in metagenomic studies.

Published in:

Environmental Microbiome, 2025, v. 20, n. 1, p. 1, doi. 10.1186/s40793-025-00704-7

By:

Herbert, Josephine;
Thompson, Stanley;
Beckett, Angela H.;
Robson, Samuel C.

Publication type:

Article

Combining Genome-Wide Association Mapping and Transcriptional Networks to Identify Novel Genes Controlling Glucosinolates in Arabidopsis thaliana.

Published in:

PLoS Biology, 2011, v. 9, n. 8, p. 1, doi. 10.1371/journal.pbio.1001125

By:

Chan, Eva K. F.;
Rowe, Heather C.;
Corwin, Jason A.;
Joseph, Bindu;
Kliebenstein, Daniel J.

Publication type:

Article

The Undergraduate Genomics Research Initiative.

Published in:

PLoS Biology, 2007, v. 5, n. 5, p. e141, doi. 10.1371/journal.pbio.0050141

By:

Kerfeld, Cheryl A.;
Simons, Robert W.

Publication type:

Article

How Bacterial Communities Expand Functional Repertoires.

Published in:

PLoS Biology, 2006, v. 4, n. 12, p. 2193, doi. 10.1371/journal.pbio.0040430

By:

Versalovic, James;
Relman, David

Publication type:

Article

The Marine Viromes of Four Oceanic Regions.

Published in:

PLoS Biology, 2006, v. 4, n. 11, p. 2121, doi. 10.1371/journal.pbio.0040368

By:

Angly, Florent E.;
Felts, Ben;
Breitbart, Mya;
Salamon, Peter;
Edwards, Robert A.;
Carlson, Craig;
Chan, Amy M.;
Haynes, Matthew;
Kelley, Scott;
Hong Liu;
Mahaffy, Joseph M.;
Mueller, Jennifer E.;
Nulton, Jim;
Olson, Robert;
Parsons, Rachel;
Rayhawk, Steve;
Suttle, Curtis A.;
Rohwer, Forest

Publication type:

Article

The Cobweb of Life Revealed by Genome-Scale Estimates of Horizontal Gene Transfer.

Published in:

PLoS Biology, 2005, v. 3, n. 8, p. 1, doi. 10.1371/journal.pbio.0030316

By:

Ge, Fan;
Wang, Li-San;
Kim, Junhyong

Publication type:

Article

GI-Cluster: Detecting genomic islands via consensus clustering on multiple features.

Published in:

Journal of Bioinformatics & Computational Biology, 2018, v. 16, n. 3, p. N.PAG, doi. 10.1142/S0219720018400103

By:

Lu, Bingxin;
Leong, Hon Wai

Publication type:

Article

Metagenome sequence clustering with hash-based canopies.

Published in:

Journal of Bioinformatics & Computational Biology, 2017, v. 15, n. 6, p. -1, doi. 10.1142/S0219720017400066

By:

Rahman, Mohammad Arifur;
LaPierre, Nathan;
Rangwala, Huzefa;
Barbara, Daniel

Publication type:

Article

DETECTING COPY NUMBER VARIATIONS FROM ARRAY CGH DATA BASED ON A CONDITIONAL RANDOM FIELD MODEL.

Published in:

Journal of Bioinformatics & Computational Biology, 2010, v. 8, n. 2, p. 295, doi. 10.1142/S021972001000480X

By:

YIN, XIAO-LIN;
LI, JING

Publication type:

Article

FINDING NON-CODING RNAs THROUGH GENOME-SCALE CLUSTERING.

Published in:

Journal of Bioinformatics & Computational Biology, 2009, v. 7, n. 2, p. 373, doi. 10.1142/S0219720009004126

By:

Tseng, Huei-Hun;
Weinberg, Zasha;
Gore, Jeremy;
Breaker, Ronald R.;
Ruzzo, Walter L.

Publication type:

Article

Shedding new light on viral photosynthesis.

Published in:

Photosynthesis Research, 2015, v. 126, n. 1, p. 71, doi. 10.1007/s11120-014-0057-x

By:

Puxty, Richard;
Millard, Andrew;
Evans, David;
Scanlan, David

Publication type:

Article

Recent progress and new challenges in metagenomics for biotechnology.

Published in:

Biotechnology Letters, 2010, v. 32, n. 10, p. 1351, doi. 10.1007/s10529-010-0306-9

By:

Chistoserdova, Ludmila

Publication type:

Article

Determining the Water Holding Capacity of Microbial Cellulose.

Published in:

Biotechnology Letters, 2005, v. 27, n. 19, p. 1435, doi. 10.1007/s10529-005-1465-y

By:

Schrecker, S. T.;
Gostomski, P. A.

Publication type:

Article

Comparative Genomics of Nitrogen Cycling Pathways in Bacteria and Archaea.

Published in:

Microbial Ecology, 2019, v. 77, n. 3, p. 597, doi. 10.1007/s00248-018-1239-4

By:

Albright, Michaeline B. N.;
Timalsina, Bibek;
Martiny, Jennifer B. H.;
Dunbar, John

Publication type:

Article

Genome Characteristics of Two Novel Type I Methanotrophs Enriched from North Sea Sediments Containing Exclusively a Lanthanide-Dependent XoxF5-Type Methanol Dehydrogenase.

Published in:

Microbial Ecology, 2016, v. 72, n. 3, p. 503, doi. 10.1007/s00248-016-0808-7

By:

Vekeman, Bram;
Speth, Daan;
Wille, Jasper;
Cremers, Geert;
De Vos, Paul;
Op den Camp, Huub;
Heylen, Kim

Publication type:

Article

The Salmonella enterica Pan-genome.

Published in:

Microbial Ecology, 2011, v. 62, n. 3, p. 487, doi. 10.1007/s00248-011-9880-1

By:

Jacobsen, Annika;
Hendriksen, Rene;
Aaresturp, Frank;
Ussery, David;
Friis, Carsten

Publication type:

Article

Revamp a model—status and prospects of the Dictyostelium genome project.

Published in:

Current Genetics, 2003, v. 44, n. 2, p. 59, doi. 10.1007/s00294-003-0416-1

By:

Eichinger, Ludwig

Publication type:

Article

THE LENGTH OF CODING SEQUENCES IN A BACTERIAL GENOME:: EVIDENCE FOR SHORT-RANGE CORRELATION.

Published in:

Fluctuation & Noise Letters, 2007, v. 7, n. 4, p. L501, doi. 10.1142/S0219477507004173

By:

Zainea, Oana;
Morariu, Vasile V.

Publication type:

Article

Based on the Co-Evolution of lncRNAs-Microbiota and Metabolites in Rumen Epithelium to Analyze the Adaptation Characteristics of Tibetan Sheep to Nutrient Stress in the Cold Season.

Published in:

Fermentation (Basel), 2023, v. 9, n. 10, p. 892, doi. 10.3390/fermentation9100892

By:

Liu, Xiu;
Guo, Xinyu;
Sha, Yuzhu;
He, Yanyu;
Shao, Pengyang;
Hu, Jiang;
Wang, Jiqing;
Li, Shaobin;
Hao, Zhiyun

Publication type:

Article

Targeted genomic detection of biosynthetic pathways: anaerobic production of hopanoid biomarkers by a common sedimentary microbe.

Published in:

Geobiology, 2005, v. 3, n. 1, p. 33, doi. 10.1111/j.1472-4669.2005.00041.x

By:

Fischer, W. W.;
Summons, R. E.;
Pearson, A.

Publication type:

Article

Multimedia in Biochemistry and Molecular Biology Education.

Published in:

2010

By:

Parslow, Graham R.

Publication type:

Web Site Review

The microbiome- a new frontier of biology.

Published in:

2012

By:

Gyles, Canton

Publication type:

Editorial

Four Basic Symmetry Types in the Universal 7-Cluster Structure of Microbial Genomic Sequences.

Published in:

In Silico Biology, 2005, v. 5, n. 3, p. 265, doi. 10.3233/isb-00185

By:

Gorban, Alexander N.;
Popova, Tatyana G.;
Zinovyev, Andrei Y.;
Wingender, E.

Publication type:

Article

Erratum to: The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4).

Published in:

Standards in Genomic Sciences, 2016, v. 11, n. 1, p. 1, doi. 10.1186/s40793-016-0148-8

By:

Huntemann, Marcel;
Ivanova, Natalia;
Mavromatis, Konstantinos;
Tripp, H.;
Paez-Espino, David;
Palaniappan, Krishnaveni;
Szeto, Ernest;
Pillay, Manoj;
Chen, I-Min;
Pati, Amrita;
Nielsen, Torben;
Markowitz, Victor;
Kyrpides, Nikos

Publication type:

Article

High quality permanent draft genome sequence of Phaseolibacter flectens ATCC 12775, a plant pathogen of French bean pods.

Published in:

Standards in Genomic Sciences, 2016, v. 11, n. 1, p. 1, doi. 10.1186/s40793-015-0127-5

By:

Aizenberg-Gershtein, Yana;
Izhaki, Ido;
Lapidus, Alla;
Copeland, Alex;
Reddy, TBK;
Huntemann, Marcel;
Pillay, Manoj;
Markowitz, Victor;
Göker, Markus;
Woyke, Tanja;
Klenk, Hans-Peter;
Kyrpides, Nikos;
Halpern, Malka

Publication type:

Article

The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4).

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/s40793-015-0077-y

By:

Huntemann, Marcel;
Ivanova, Natalia;
Mavromatis, Konstantinos;
Tripp, H.;
Paez-Espino, David;
Palaniappan, Krishnaveni;
Szeto, Ernest;
Pillay, Manoj;
Chen, I-Min;
Pati, Amrita;
Nielsen, Torben;
Markowitz, Victor;
Kyrpides, Nikos

Publication type:

Article

High quality draft genome sequence of Meganema perideroedes str. Gr1T and a proposal for its reclassification to the family Meganemaceae fam. nov.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/s40793-015-0013-1

By:

McIlroy, Simon J.;
Lapidus, Alla;
Thomsen, Trine R.;
Han, James;
Haynes, Matthew;
Lobos, Elizabeth;
Huntemann, Marcel;
Pati, Amrita;
Ivanova, Natalia N.;
Markowitz, Victor;
Verbarg, Susanne;
Woyke, Tanja;
Klenk, Hans-Peter;
Kyrpides, Nikos;
Nielsen, Per H.

Publication type:

Article

High-quality permanent draft genome sequence of the extremely osmotolerant diphenol degrading bacterium Halotalea alkalilenta AW-7T, and emended description of the genus Halotalea.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/s40793-015-0052-7

By:

Ntougias, Spyridon;
Lapidus, Alla;
Copeland, Alex;
Reddy, T. B. K.;
Pati, Amrita;
Ivanova, Natalia N.;
Markowitz, Victor M.;
Klenk, Hans-Peter;
Woyke, Tanja;
Fasseas, Constantinos;
Kyrpides, Nikos C.;
Zervakis, Georgios I.

Publication type:

Article

Large-scale contamination of microbial isolate genomes by Illumina PhiX control.

Published in:

Standards in Genomic Sciences, 2015, v. 10, n. 1, p. 1, doi. 10.1186/1944-3277-10-18

By:

Mukherjee, Supratim;
Huntemann, Marcel;
Ivanova, Natalia;
Kyrpides, Nikos C.;
Pati, Amrita

Publication type:

Article

Genomic Encyclopedia of Type Strains, Phase I: The one thousand microbial genomes (KMG-I) project.

Published in:

Standards in Genomic Sciences, 2014, v. 9, n. 3, p. 1278, doi. 10.4056/sigs.5068949

By:

Kyrpides, Nikos;
Woyke, Tanja;
Eisen, Jonathan;
Garrity, George;
Lilburn, Timothy;
Beck, Brian;
Whitman, William;
Hugenholtz, Phil;
Klenk, Hans-Peter

Publication type:

Article

Complete genome sequence of Syntrophobacter fumaroxidans strain (MPOBT).

Published in:

Standards in Genomic Sciences, 2012, v. 7, n. 1, p. 91, doi. 10.4056/sigs.2996379

By:

Plugge, Caroline M.;
Henstra, Anne M.;
Worm, Petra;
Swarts, Daan C.;
Paulitsch-Fuchs, Astrid H.;
Scholten, Johannes C.M.;
Lykidis, Athanasios;
Lapidus, Alla L.;
Goltsman, Eugene;
Kim, Edwin;
McDonald, Erin;
Rohlin, Lars;
Crable, Bryan R.;
Gunsalus, Robert P.;
Stams, Alfons J.M.;
McInerney, Michael J.

Publication type:

Article

Expression and Purification of Bsa XI Restriction Endonuclease and Engineering New Specificity From Bsa XI Specificity Subunit.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.888435

By:

Gidwani, Sonal;
Heiter, Daniel;
Xu, Shuang-yong

Publication type:

Article

Potential Use of Microbial Community Genomes in Various Dimensions of Agriculture Productivity and Its Management: A Review.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.708335

By:

Iquebal, Mir Asif;
Jagannadham, Jaisri;
Jaiswal, Sarika;
Prabha, Ratna;
Rai, Anil;
Kumar, Dinesh

Publication type:

Article

Overexpression of BIT33_RS14560 Enhances the Biofilm Formation and Virulence of Acinetobacter baumannii.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.867770

By:

Yang, Ruifu;
Lai, Bipeng;
Liao, Kang;
Liu, Baomo;
Huang, Lixia;
Li, Shaoli;
Gu, Jincui;
Lin, Ziying;
Chen, Yili;
Wang, Shuaishuai;
Qiu, Yanli;
Deng, Jiating;
Chen, Simin;
Zhuo, Chao;
Zhou, Yanbin

Publication type:

Article

Editorial: Computational Predictions, Dynamic Tracking, and Evolutionary Analysis of Antibiotic Resistance Through the Mining of Microbial Genomes and Metagenomic Data.

Published in:

2022

By:

Wang, Liang;
Tay, Alfred Chin Yen;
Li, Jian;
Zhao, Qi

Publication type:

Editorial

A Large-Scale Genome-Based Survey of Acidophilic Bacteria Suggests That Genome Streamlining Is an Adaption for Life at Low pH.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.803241

By:

Cortez, Diego;
Neira, Gonzalo;
González, Carolina;
Vergara, Eva;
Holmes, David S.

Publication type:

Article

Machine Learning and Deep Learning Applications in Metagenomic Taxonomy and Functional Annotation.

Published in:

Frontiers in Microbiology, 2022, v. 13, p. 1, doi. 10.3389/fmicb.2022.811495

By:

Mathieu, Alban;
Leclercq, Mickael;
Sanabria, Melissa;
Perin, Olivier;
Droit, Arnaud

Publication type:

Article

CANT-HYD: A Curated Database of Phylogeny-Derived Hidden Markov Models for Annotation of Marker Genes Involved in Hydrocarbon Degradation.

Published in:

Frontiers in Microbiology, 2022, v. 12, p. 1, doi. 10.3389/fmicb.2021.764058

By:

Khot, Varada;
Zorz, Jackie;
Gittins, Daniel A.;
Chakraborty, Anirban;
Bell, Emma;
Bautista, María A.;
Paquette, Alexandre J.;
Hawley, Alyse K.;
Novotnik, Breda;
Hubert, Casey R. J.;
Strous, Marc;
Bhatnagar, Srijak

Publication type:

Article

A Genomic Perspective Across Earth's Microbiomes Reveals That Genome Size in Archaea and Bacteria Is Linked to Ecosystem Type and Trophic Strategy.

Published in:

Frontiers in Microbiology, 2022, v. 12, p. 1, doi. 10.3389/fmicb.2021.761869

By:

Rodríguez-Gijón, Alejandro;
Nuy, Julia K.;
Mehrshad, Maliheh;
Buck, Moritz;
Schulz, Frederik;
Woyke, Tanja;
Garcia, Sarahi L.

Publication type:

Article

Diversity and Function of Wolf Spider Gut Microbiota Revealed by Shotgun Metagenomics.

Published in:

Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.758794

By:

Wu, Runbiao;
Wang, Luyu;
Xie, Jianping;
Zhang, Zhisheng

Publication type:

Article

Editorial: The Uncultured Microorganisms: Novel Technologies and Applications.

Published in:

Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.756287

By:

Xie, Bin-Bin;
Li, Meng;
Anantharaman, Karthik;
Ravin, Nikolai V.

Publication type:

Article

Enhanced Recovery of Microbial Genes and Genomes From a Marine Water Column Using Long-Read Metagenomics.

Published in:

Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.708782

By:

Haro-Moreno, Jose M.;
López-Pérez, Mario;
Rodriguez-Valera, Francisco

Publication type:

Article

Developing Bioprospecting Strategies for Bioplastics Through the Large-Scale Mining of Microbial Genomes.

Published in:

Frontiers in Microbiology, 2021, v. 12, p. 1, doi. 10.3389/fmicb.2021.697309

By:

Vuong, Paton;
Lim, Daniel J.;
Murphy, Daniel V.;
Wise, Michael J.;
Whiteley, Andrew S.;
Kaur, Parwinder

Publication type:

Article

Mycobacterial Evolution Intersects With Host Tolerance.

Published in:

Frontiers in Immunology, 2019, p. N.PAG, doi. 10.3389/fimmu.2019.00528

By:

Saelens, Joseph W.;
Viswanathan, Gopinath;
Tobin, David M.

Publication type:

Article

Single-cell analysis and spatial resolution of the gut microbiome.

Published in:

Frontiers in Cellular & Infection Microbiology, 2023, p. 1, doi. 10.3389/fcimb.2023.1271092

By:

Madhu, Bhoomi;
Miller, Brittany M.;
Levy, Maayan

Publication type:

Article

The bladder microbiome of NMIBC and MIBC patients revealed by 2bRAD-M.

Published in:

Frontiers in Cellular & Infection Microbiology, 2023, p. 1, doi. 10.3389/fcimb.2023.1182322

By:

Jian-Xuan Sun;
Qi-Dong Xia;
Xing-Yu Zhong;
Zheng Liu;
Shao-Gang Wang

Publication type:

Article

Ixodes Immune Responses Against Lyme Disease Pathogens.

Published in:

Frontiers in Cellular & Infection Microbiology, 2018, v. 8, p. N.PAG, doi. 10.3389/fcimb.2018.00176

By:

Kitsou, Chrysoula;
Pal, Utpal

Publication type:

Article

The calcium binding protein EhCaBP6 is a microtubular-end binding protein in Entamoeba histolytica.

Published in:

Cellular Microbiology, 2013, v. 15, n. 12, p. 2020, doi. 10.1111/cmi.12167

By:

Grewal, Jaspreet Singh;
Padhan, Narendra;
Aslam, Saima;
Bhattacharya, Alok;
Lohia, Anuradha

Publication type:

Article

Coiled-coils in type III secretion systems: structural flexibility, disorder and biological implications.

Published in:

Cellular Microbiology, 2009, v. 11, n. 5, p. 719, doi. 10.1111/j.1462-5822.2009.01297.x

By:

Gazi, Anastasia D.;
Charova, Spyridoula N.;
Panopoulos, Nicholas J.;
Kokkinidis, Michael

Publication type:

Article

Viral interactions with the cytoskeleton: a hitchhiker's guide to the cell.

Published in:

Cellular Microbiology, 2006, v. 8, n. 3, p. 387, doi. 10.1111/j.1462-5822.2005.00679.x

By:

Radtke, Kerstin;
Döhner, Katinka;
Sodeik, Beate

Publication type:

Article