Works matching DE "SHOTGUN sequencing"

Results: 1716

NEW ANTIBIOTIC MOLECULES AND NEW RESISTANCE PATTERNS IN ENTEROBACTERALES.

Published in:

Romanian Archives of Microbiology & Immunology, 2024, v. 83, n. 3, p. 195

By:

HOGEA, MIHAI-OCTAV

Publication type:

Article

Comparative analysis of human gut bacterial microbiota between shallow shotgun metagenomic sequencing and full-length 16S rDNA amplicon sequencing.

Published in:

BioScience Trends, 2025, v. 19, n. 2, p. 232, doi. 10.5582/bst.2024.01393

By:

Suwalak Chitcharoen;
Vorthon Sawaswong;
Pavit Klomkliew;
Prangwalai Chanchaem;
Sunchai Payungporn

Publication type:

Article

A comprehensive multi-omics analysis uncovers the associations between gut microbiota and pancreatic cancer.

Published in:

Frontiers in Microbiology, 2025, p. 1, doi. 10.3389/fmicb.2025.1592549

By:

Han, Yang;
Cao, Biyang;
Tang, Jiayue;
Wang, Jing

Publication type:

Article

DNA extraction protocols for animal fecal material on blood spot cards.

Published in:

PLoS ONE, 2025, v. 20, n. 5, p. 1, doi. 10.1371/journal.pone.0313808

By:

Llarena, Ann-Katrin;
Haverkamp, Thomas H. A.;
Gulliksen, Wenche Støldal;
Herstad, Kristin;
Holst-Jensen, Arne;
Skjerve, Eystein;
Rannem, Lisbeth;
Rodriguez-Campos, Sabrina;
Øines, Øivind

Publication type:

Article

Response to Endogenous Ethanol Production in the Human Alimentary Tract: A Literature Review.

Published in:

Journal of Gastroenterology & Hepatology, 2025, v. 40, n. 5, p. 1317, doi. 10.1111/jgh.16924

By:

Damianos, John A.

Publication type:

Article

Metagenomic Analysis of Caseum of Tuberculosis Foci.

Published in:

Bulletin of Experimental Biology & Medicine, 2025, v. 178, n. 5, p. 610, doi. 10.1007/s10517-025-06384-0

By:

Orlova, E. A.;
Sinkov, V. V.;
Ogarkov, O. B.;
Suzdalnitsky, A. E.;
Kondratov, I. G.;
Zhdanova, S. N.;
Rychkova, L. V.;
Kolesnikova, L. I.

Publication type:

Article

Advancing molecular macrobenthos biodiversity monitoring: a comparison between Oxford Nanopore and Illumina based metabarcoding and metagenomics.

Published in:

PeerJ, 2025, p. 1, doi. 10.7717/peerj.19158

By:

Doorenspleet, Karlijn;
Mailli, Amalia Aikaterini;
van der Hoorn, Berry B.;
Beentjes, Kevin K.;
De Backer, Annelies;
Derycke, Sofie;
Murk, Albertinka J.;
Reiss, Henning;
Nijland, Reindert

Publication type:

Article

Elementary methods provide more replicable results in microbial differential abundance analysis.

Published in:

Briefings in Bioinformatics, 2025, v. 26, n. 2, p. 1, doi. 10.1093/bib/bbaf130

By:

Pelto, Juho;
Auranen, Kari;
Kujala, Janne V;
Lahti, Leo

Publication type:

Article

Microscopic and Metagenomic Evidence for Eukaryotic Microorganisms Associated with Atacama Desert Populations of Giant Equisetum.

Published in:

American Fern Journal, 2021, v. 111, n. 2, p. 86, doi. 10.1640/0002-8444-111.2.86

By:

Satjarak, Anchittha;
Piotrowski, Michael J.;
Graham, Linda E.;
Trest, Marie T.;
Wilcox, Lee W.;
Knack, Jennifer J.;
Cook, Martha E.;
Arancibia-Avila, Patricia

Publication type:

Article

Bullseye: shotgun metagenomics taking aim at the microbial diversity associated with tubes of Ceriantharia.

Published in:

Aquatic Ecology, 2024, v. 58, n. 4, p. 1287, doi. 10.1007/s10452-024-10144-z

By:

Ceriello, Hellen;
Brito, Gustavo R.;
de Oliveira, Bruno Francesco Rodrigues;
Cunha, Marielton dos Passos;
Stampar, Sérgio N.

Publication type:

Article

Assessments of the impacts of chemical and hydrocarbon pollution on Ologe Lagoon water and its prokaryotic community structure.

Published in:

Aquatic Ecology, 2024, v. 58, n. 3, p. 741, doi. 10.1007/s10452-024-10102-9

By:

Ashade, Ahmeed Olalekan;
Obayori, Oluwafemi Sunday;
Salam, Lateef Babatunde;
Fashola, Muibat Omotola;
Nwaokorie, Francisca Obiageri

Publication type:

Article

Unlocking the jar: revealing gastric content in Ceriantharia (Cnidaria, Anthozoa) through whole-genome shotgun sequencing.

Published in:

Aquatic Ecology, 2024, v. 58, n. 2, p. 375, doi. 10.1007/s10452-023-10076-0

By:

Santos, Thaís Barbosa;
Poliseno, Angelo;
Bendia, Amanda G.;
Pellizari, Vivian H.;
Reimer, James D.;
Stampar, Sérgio N.

Publication type:

Article

Years After a Fire, Biocrust Microbial Communities are Similar to Unburned Communities in a Coastal Grassland.

Published in:

Microbial Ecology, 2023, v. 85, n. 3, p. 1028, doi. 10.1007/s00248-022-02137-y

By:

Palmer, Brianne;
Lawson, Dawn;
Lipson, David A.

Publication type:

Article

Metagenomics Analysis to Investigate the Microbial Communities and Their Functional Profile During Cyanobacterial Blooms in Lake Varese.

Published in:

Microbial Ecology, 2022, v. 83, n. 4, p. 850, doi. 10.1007/s00248-021-01914-5

By:

Sanseverino, Isabella;
Pretto, Patrizia;
António, Diana Conduto;
Lahm, Armin;
Facca, Chiara;
Loos, Robert;
Skejo, Helle;
Beghi, Andrea;
Pandolfi, Franca;
Genoni, Pietro;
Lettieri, Teresa

Publication type:

Article

Differences in Precipitation Regime Shape Microbial Community Composition and Functional Potential in Namib Desert Soils.

Published in:

Microbial Ecology, 2022, v. 83, n. 3, p. 689, doi. 10.1007/s00248-021-01785-w

By:

Naidoo, Yashini;
Valverde, Angel;
Pierneef, Rian E.;
Cowan, Don A.

Publication type:

Article

Relationship Between Peat Type and Microbial Ecology in Sphagnum-Containing Peatlands of the Adirondack Mountains, NY, USA.

Published in:

Microbial Ecology, 2021, v. 82, n. 2, p. 429, doi. 10.1007/s00248-020-01651-1

By:

St. James, Andrew R.;
Lin, Janni;
Richardson, Ruth E.

Publication type:

Article

Influence of Environmental Stressors on the Microbiota of Zebra Mussels (Dreissena polymorpha).

Published in:

Microbial Ecology, 2021, v. 81, n. 4, p. 1042, doi. 10.1007/s00248-020-01642-2

By:

Mathai, Prince P.;
Bertram, Jonathan H.;
Padhi, Soumesh K.;
Singh, Vikash;
Tolo, Isaiah E.;
Primus, Alexander;
Mor, Sunil K.;
Phelps, Nicholas B. D.;
Sadowsky, Michael J.

Publication type:

Article

Depicting Temporal, Functional, and Phylogenetic Patterns in Estuarine Diazotrophic Communities from Environmental DNA and RNA.

Published in:

Microbial Ecology, 2021, v. 81, n. 1, p. 36, doi. 10.1007/s00248-020-01562-1

By:

Zilius, Mindaugas;
Samuiloviene, Aurelija;
Stanislauskienė, Rūta;
Broman, Elias;
Bonaglia, Stefano;
Meškys, Rolandas;
Zaiko, Anastasija

Publication type:

Article

Microbial Assemblage Dynamics Within the American Alligator Nesting Ecosystem: a Comparative Approach Across Ecological Scales.

Published in:

Microbial Ecology, 2020, v. 80, n. 3, p. 603, doi. 10.1007/s00248-020-01522-9

By:

Grajal-Puche, Alejandro;
Murray, Christopher M.;
Kearley, Matthew;
Merchant, Mark;
Nix, Christopher;
Warner, Jonathan K.;
Walker, Donald M.

Publication type:

Article

Vaginal Microbiome of Pregnant Indian Women: Insights into the Genome of Dominant Lactobacillus Species.

Published in:

Microbial Ecology, 2020, v. 80, n. 2, p. 487, doi. 10.1007/s00248-020-01501-0

By:

Mehta, Ojasvi;
Ghosh, Tarini Shankar;
Kothidar, Akansha;
Gowtham, M. Rama;
Mitra, Ridhima;
Kshetrapal, Pallavi;
Wadhwa, Nitya;
Thiruvengadam, Ramachandran;
GARBH-Ini study group;
Bhatnagar, Shinjini;
Das, Bhabatosh;
Kshetrapal, Pallavi S.;
Balakrish Nair, Balakrish G.;
Natchu, Uma Chandra Mouli;
Rath, Satyajit;
Sachdeva, Kanika;
Sopory, Shailaja;
Misra, Sumit;
Singh, Amanpreet;
Sharma, Dharmendra

Publication type:

Article

Biological Soil Crusts from Different Soil Substrates Harbor Distinct Bacterial Groups with the Potential to Produce Exopolysaccharides and Lipopolysaccharides.

Published in:

Microbial Ecology, 2020, v. 79, n. 2, p. 326, doi. 10.1007/s00248-019-01415-6

By:

Cania, Barbara;
Vestergaard, Gisle;
Kublik, Susanne;
Köhne, John Maximilian;
Fischer, Thomas;
Albert, Andreas;
Winkler, Barbro;
Schloter, Michael;
Schulz, Stefanie

Publication type:

Article

From the High Arctic to the Equator: Do Soil Metagenomes Differ According to Our Expectations?

Published in:

Microbial Ecology, 2019, v. 77, n. 1, p. 168, doi. 10.1007/s00248-018-1215-z

By:

Kerfahi, Dorsaf;
Tripathi, Binu M.;
Dong, Ke;
Kim, Mincheol;
Kim, Hyoki;
Ferry Slik, J. W.;
Go, Rusea;
Adams, Jonathan M.

Publication type:

Article

The Functional Potential of the Rhizospheric Microbiome of an Invasive Tree Species, Acacia dealbata.

Published in:

Microbial Ecology, 2019, v. 77, n. 1, p. 191, doi. 10.1007/s00248-018-1214-0

By:

Kamutando, Casper N.;
Vikram, Surendra;
Kamgan-Nkuekam, Gilbert;
Makhalanyane, Thulani P.;
Greve, Michelle;
Le Roux, Johannes J.;
Richardson, David M.;
Cowan, Don A.;
Valverde, Angel

Publication type:

Article

IncP-1β Plasmids Are Important Carriers of Fitness Traits for Variovorax Species in the Mycosphere-Two Novel Plasmids, pHB44 and pBS64, with Differential Effects Unveiled.

Published in:

Microbial Ecology, 2015, v. 70, n. 1, p. 141, doi. 10.1007/s00248-014-0550-y

By:

Zhang, Miaozhi;
Warmink, Jan;
Pereira e Silva, Michele;
Brons, Jolanda;
Smalla, Kornelia;
van Elsas, Jan

Publication type:

Article

Soil-Borne Microbiome: Linking Diversity to Function.

Published in:

Microbial Ecology, 2015, v. 70, n. 1, p. 255, doi. 10.1007/s00248-014-0559-2

By:

Mendes, Lucas;
Tsai, Siu;
Navarrete, Acácio;
Hollander, Mattias;
Veen, Johannes;
Kuramae, Eiko

Publication type:

Article

Primary exploring the value of metagenomic next‐generation sequencing in detecting pathogenic bacteria of cholangitis with biliary atresia after Kasai operation.

Published in:

Pediatric Surgery International, 2022, v. 38, n. 12, p. 1931, doi. 10.1007/s00383-022-05254-4

By:

Yu, Pu;
Li, Mengdi;
Sun, Rongjuan;
Zhan, Jianghua;
Pan, Yongkang

Publication type:

Article

Metagenomic analysis reveals gestational diabetes mellitus-related microbial regulators of glucose tolerance.

Published in:

Acta Diabetologica, 2020, v. 57, n. 5, p. 569, doi. 10.1007/s00592-019-01434-2

By:

Wu, Yanxin;
Bible, Paul W.;
Long, Sizhe;
Ming, Wai-kit;
Ding, Wenjing;
Long, Yuhang;
Wen, Xiaofeng;
Li, Xifang;
Deng, Xiuli;
Deng, Yuhua;
Guo, Shixin;
Doçi, Colleen L.;
Wei, Lai;
Chen, Haitian;
Wang, Zilian

Publication type:

Article

A single, peri-operative antibiotic can persistently alter the post-operative gut microbiome after Roux-en-Y gastric bypass.

Published in:

Surgical Endoscopy & Other Interventional Techniques, 2023, v. 37, n. 2, p. 1476, doi. 10.1007/s00464-022-09387-4

By:

Fernando, Deemantha G.;
Saravia, Fatima L.;
Atkinson, Samantha N.;
Barron, Matthew;
Kirby, John R.;
Kindel, Tammy L.

Publication type:

Article

Physlr: Next-Generation Physical Maps.

Published in:

DNA (2673-8856), 2022, v. 2, n. 2, p. 116, doi. 10.3390/dna2020009

By:

Afshinfard, Amirhossein;
Jackman, Shaun D.;
Wong, Johnathan;
Coombe, Lauren;
Chu, Justin;
Nikolic, Vladimir;
Dilek, Gokce;
Malkoç, Yaman;
Warren, René L.;
Birol, Inanc

Publication type:

Article

A29 NOVEL FECAL BIOMARKERS THAT PRECEDE CLINICAL DIAGNOSIS OF ULCERATIVE COLITIS.

Published in:

Journal of the Canadian Association of Gastroenterology, 2021, v. 4, p. 268, doi. 10.1093/jcag/gwab002.028

By:

Galipeau, H J;
FERNANDEZ, A CAMINERO;
Turpin, W;
Bermudez-Brito, M;
Santiago, A;
Libertucci, J;
Constante, M;
Garay, J Raygoza;
Rueda, G H;
Clarizio, A V;
Smith, M I;
Surette, M;
Bercik, P;
Croitoru, K;
Verdu, E

Publication type:

Article

Rice domestication influences the composition and function of the rhizosphere bacterial chemotaxis systems.

Published in:

Plant & Soil, 2021, v. 466, n. 1/2, p. 81, doi. 10.1007/s11104-021-05036-2

By:

Sun, Yu;
Tian, Lei;
Chang, Jingjing;
Shi, Shaohua;
Zhang, Jianfeng;
Xie, Hongwei;
Cai, Yaohui;
Chen, Dazhou;
Kuramae, Eiko E.;
van Veen, Johannes A.;
Li, Weiqiang;
Tran, Lam-Son Phan;
Tian, Chunjie

Publication type:

Article

Metagenomic analysis of microbial communities across a transect from low to highly hydrocarbon‐contaminated soils in King George Island, Maritime Antarctica.

Published in:

Geobiology, 2022, v. 20, n. 1, p. 98, doi. 10.1111/gbi.12472

By:

Jurelevicius, Diogo;
Pereira, Raphael da Silva;
da Mota, Fabio Faria;
Cury, Juliano C.;
de Oliveira, Ivan Cardoso;
Rosado, Alexandre S.;
Mason, Olivia U.;
Jansson, Janet K.;
Seldin, Lucy

Publication type:

Article

Microbial Diversity and Contamination Sources of Psychrophilic Bacteria in Raw Milk and in Pastures Environment.

Published in:

Journal of Chinese Institute of Food Science & Technology / Zhongguo Shipin Xuebao, 2024, v. 24, n. 3, p. 258, doi. 10.16429/j.1009-7848.2024.03.026

By:

Hu Shaozhen;
Lu Gang;
Yu Dongwei;
Lu Jiaping;
Zhang Shuwen;
Li Lianrui;
Pang Xiaoyang

Publication type:

Article

Targeted Whole Genome Sequencing (TWG-Seq) of Cucumber Green Mottle Mosaic Virus Using Tiled Amplicon Multiplex PCR and Nanopore Sequencing.

Published in:

Plants (2223-7747), 2022, v. 11, n. 20, p. 2716, doi. 10.3390/plants11202716

By:

Mackie, Joanne;
Kinoti, Wycliff M.;
Chahal, Sumit I.;
Lovelock, David A.;
Campbell, Paul R.;
Tran-Nguyen, Lucy T. T.;
Rodoni, Brendan C.;
Constable, Fiona E.

Publication type:

Article

Reference-Guided De Novo Genome Assembly to Dissect a QTL Region for Submergence Tolerance Derived from Ciherang-Sub1.

Published in:

Plants (2223-7747), 2021, v. 10, n. 12, p. 2740, doi. 10.3390/plants10122740

By:

Liang, Yuya;
Wang, Shichen;
Harper, Chersty L.;
Subramanian, Nithya K.;
Tabien, Rodante E.;
Johnson, Charles D.;
Bailey-Serres, Julia;
Septiningsih, Endang M.

Publication type:

Article

Comparative Microbiome Study of Mummified Peach Fruits by Metagenomics and Metatranscriptomics.

Published in:

Plants (2223-7747), 2020, v. 9, n. 8, p. 1052, doi. 10.3390/plants9081052

By:

Jo, Yeonhwa;
Back, Chang-Gi;
Choi, Hoseong;
Cho, Won Kyong

Publication type:

Article

Metagenomic Insights of the Root Colonizing Microbiome Associated with Symptomatic and Non-Symptomatic Bananas in Fusarium Wilt Infected Fields.

Published in:

Plants (2223-7747), 2020, v. 9, n. 2, p. 263, doi. 10.3390/plants9020263

By:

Kaushal, Manoj;
Mahuku, George;
Swennen, Rony

Publication type:

Article

Organization Features of the Mitochondrial Genome of Sunflower (Helianthus annuus L.) with ANN2-Type Male-Sterile Cytoplasm.

Published in:

Plants (2223-7747), 2019, v. 8, n. 11, p. 439, doi. 10.3390/plants8110439

By:

Makarenko, Maksim S.;
Usatov, Alexander V.;
Tatarinova, Tatiana V.;
Azarin, Kirill V.;
Logacheva, Maria D.;
Gavrilova, Vera A.;
Kornienko, Igor V.;
Horn, Renate

Publication type:

Article

Developing Chloroplast Genomic Resources from 25 Avena Species for the Characterization of Oat Wild Relative Germplasm.

Published in:

Plants (2223-7747), 2019, v. 8, n. 11, p. 438, doi. 10.3390/plants8110438

By:

Fu, Yong-Bi;
Li, Pingchuan;
Biligetu, Bill

Publication type:

Article

Developing the Protocol Infrastructure for DNA Sequencing Natural History Collections.

Published in:

Biodiversity Data Journal, 2023, p. 1, doi. 10.3897/BDJ.11.e102317

By:

Ferrari, Giada;
Esselens, Lore;
Hart, Michelle;
Janssens, Steven;
Kidner, Catherine;
Mascarello, Maurizio;
Peñalba, Joshua;
Pezzini, Flávia;
von Rintelen, Thomas;
Sonet, Gontran;
Vangestel, Carl;
Virgilio, Massimiliano;
Hollingsworth, Peter

Publication type:

Article

Effects of cadmium perturbation on the microbial community structure and heavy metal resistome of a tropical agricultural soil.

Published in:

Bioresources & Bioprocessing, 2020, v. 7, n. 1, p. 1, doi. 10.1186/s40643-020-00314-w

By:

Salam, Lateef B.;
Obayori, Oluwafemi S.;
Ilori, Mathew O.;
Amund, Olukayode O.

Publication type:

Article

Statistical and computational methods for integrating microbiome, host genomics, and metabolomics data.

Published in:

eLife, 2024, p. 1, doi. 10.7554/eLife.88956

By:

Deek, Rebecca A.;
Siyuan Ma;
Lewis, James;
Hongzhe Li

Publication type:

Article

Meta- Research: Understudied genes are lost in a leaky pipeline between genome-wide assays and reporting of results.

Published in:

eLife, 2024, p. 1, doi. 10.7554/eLife.93429

By:

Richardson, Reese;
Navarro, Heliodoro Tejedor;
Amaral, Luis A. Nunes;
Stoeger, Thomas

Publication type:

Article

Non‐invasive prenatal testing for the prenatal screening of sex chromosome aneuploidies: A systematic review and meta‐analysis of diagnostic test accuracy studies.

Published in:

Molecular Genetics & Genomic Medicine, 2021, v. 9, n. 5, p. 1, doi. 10.1002/mgg3.1654

By:

Soukkhaphone, Bounhome;
Lindsay, Carmen;
Langlois, Sylvie;
Little, Julian;
Rousseau, Francois;
Reinharz, Daniel

Publication type:

Article

Genetic analysis resolves differential diagnosis of a familial syndromic dilated cardiomyopathy: A new case of Alström syndrome.

Published in:

Molecular Genetics & Genomic Medicine, 2020, v. 8, n. 7, p. 1, doi. 10.1002/mgg3.1260

By:

Lombardo, Barbara;
D'Argenio, Valeria;
Monda, Emanuele;
Vitale, Andrea;
Caiazza, Martina;
Sacchetti, Lucia;
Pastore, Lucio;
Limongelli, Giuseppe;
Frisso, Giulia;
Mazzaccara, Cristina

Publication type:

Article

Analyzing false‐negative results detected in low‐risk non‐invasive prenatal screening cases.

Published in:

Molecular Genetics & Genomic Medicine, 2020, v. 8, n. 4, p. 1, doi. 10.1002/mgg3.1185

By:

Lin, Ying;
Liang, Dong;
Wang, Yan;
Li, Hang;
Liu, An;
Hu, Ping;
Xu, Zhengfeng

Publication type:

Article

Unveiling the microbial communities and metabolic pathways of Keem, a traditional starter culture, through whole-genome sequencing.

Published in:

Scientific Reports, 2024, v. 14, n. 1, p. 1, doi. 10.1038/s41598-024-53350-3

By:

Rana, Babita;
Chandola, Renu;
Sanwal, Pankaj;
Joshi, Gopal Krishna

Publication type:

Article

Gut microbiomes of agropastoral children from the Adadle region of Ethiopia reflect their unique dietary habits.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-47748-8

By:

Yersin, Simon;
Garneau, Julian R.;
Schneeberger, Pierre H. H.;
Osman, Kadra Ali;
Cercamondi, Colin Ivano;
Muhummed, Abdifatah Muktar;
Tschopp, Rea;
Zinsstag, Jakob;
Vonaesch, Pascale

Publication type:

Article

SSR molecular marker developments and genetic diversity analysis of Zanthoxylum nitidum (Roxb.) DC.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-48022-7

By:

Zhu, Yanxia;
Ma, Tao;
Lin, Yang;
Peng, Yude;
Huang, Yuan;
Jiang, Jianping

Publication type:

Article

Prebiotic inulin enhances gut microbial metabolism and anti-inflammation in apolipoprotein E4 mice with sex-specific implications.

Published in:

Scientific Reports, 2023, v. 13, n. 1, p. 1, doi. 10.1038/s41598-023-42381-x

By:

Chang, Ya-Hsuan;
Yanckello, Lucille M.;
Chlipala, George E.;
Green, Stefan J.;
Aware, Chetan;
Runge, Amelia;
Xing, Xin;
Chen, Anna;
Wenger, Kathryn;
Flemister, Abeoseh;
Wan, Caixia;
Lin, Ai-Ling

Publication type:

Article