Literature DB >> 27123815

Microbiology: the road to strain-level identification.

Vivien Marx1.   

Abstract

Mesh：

Year:  2016        PMID： 27123815     DOI： 10.1038/nmeth.3837

Source DB:  PubMed          Journal:  Nat Methods        ISSN： 1548-7091            Impact factor:   28.547


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  4 in total

1.  Unusual biology across a group comprising more than 15% of domain Bacteria.

Authors:  Christopher T Brown; Laura A Hug; Brian C Thomas; Itai Sharon; Cindy J Castelle; Andrea Singh; Michael J Wilkins; Kelly C Wrighton; Kenneth H Williams; Jillian F Banfield
Journal:  Nature       Date:  2015-06-15       Impact factor: 49.962

2.  Strain-level microbial epidemiology and population genomics from shotgun metagenomics.

Authors:  Matthias Scholz; Doyle V Ward; Edoardo Pasolli; Thomas Tolio; Moreno Zolfo; Francesco Asnicar; Duy Tin Truong; Adrian Tett; Ardythe L Morrow; Nicola Segata
Journal:  Nat Methods       Date:  2016-03-21       Impact factor: 28.547

3.  Binning metagenomic contigs by coverage and composition.

Authors:  Johannes Alneberg; Brynjar Smári Bjarnason; Ino de Bruijn; Melanie Schirmer; Joshua Quick; Umer Z Ijaz; Leo Lahti; Nicholas J Loman; Anders F Andersson; Christopher Quince
Journal:  Nat Methods       Date:  2014-09-14       Impact factor: 28.547

4.  Structure, function and diversity of the healthy human microbiome.

Authors: 
Journal:  Nature       Date:  2012-06-13       Impact factor: 49.962
  4 in total
  11 in total

1.  Strain-Level Differentiation of Bacteria by Paper Spray Ionization Mass Spectrometry.

Authors:  Casey A Chamberlain; Vanessa Y Rubio; Timothy J Garrett
Journal:  Anal Chem       Date:  2019-04-05       Impact factor: 6.986

Review 2.  Shotgun metagenomics, from sampling to analysis.

Authors:  Christopher Quince; Alan W Walker; Jared T Simpson; Nicholas J Loman; Nicola Segata
Journal:  Nat Biotechnol       Date:  2017-09-12       Impact factor: 54.908

3.  Enhancing Long-Read-Based Strain-Aware Metagenome Assembly.

Authors:  Xiao Luo; Xiongbin Kang; Alexander Schönhuth
Journal:  Front Genet       Date:  2022-05-13       Impact factor: 4.772

4.  Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.

Authors:  Alexander Sczyrba; Peter Hofmann; Peter Belmann; David Koslicki; Stefan Janssen; Johannes Dröge; Ivan Gregor; Stephan Majda; Jessika Fiedler; Eik Dahms; Andreas Bremges; Adrian Fritz; Ruben Garrido-Oter; Tue Sparholt Jørgensen; Nicole Shapiro; Philip D Blood; Alexey Gurevich; Yang Bai; Dmitrij Turaev; Matthew Z DeMaere; Rayan Chikhi; Niranjan Nagarajan; Christopher Quince; Fernando Meyer; Monika Balvočiūtė; Lars Hestbjerg Hansen; Søren J Sørensen; Burton K H Chia; Bertrand Denis; Jeff L Froula; Zhong Wang; Robert Egan; Dongwan Don Kang; Jeffrey J Cook; Charles Deltel; Michael Beckstette; Claire Lemaitre; Pierre Peterlongo; Guillaume Rizk; Dominique Lavenier; Yu-Wei Wu; Steven W Singer; Chirag Jain; Marc Strous; Heiner Klingenberg; Peter Meinicke; Michael D Barton; Thomas Lingner; Hsin-Hung Lin; Yu-Chieh Liao; Genivaldo Gueiros Z Silva; Daniel A Cuevas; Robert A Edwards; Surya Saha; Vitor C Piro; Bernhard Y Renard; Mihai Pop; Hans-Peter Klenk; Markus Göker; Nikos C Kyrpides; Tanja Woyke; Julia A Vorholt; Paul Schulze-Lefert; Edward M Rubin; Aaron E Darling; Thomas Rattei; Alice C McHardy
Journal:  Nat Methods       Date:  2017-10-02       Impact factor: 28.547

5.  Unexplored diversity and strain-level structure of the skin microbiome associated with psoriasis.

Authors:  Edoardo Pasolli; Stefania Farina; Duy Tin Truong; Adrian Tett; Francesco Asnicar; Moreno Zolfo; Francesco Beghini; Federica Armanini; Olivier Jousson; Veronica De Sanctis; Roberto Bertorelli; Giampiero Girolomoni; Mario Cristofolini; Nicola Segata
Journal:  NPJ Biofilms Microbiomes       Date:  2017-06-22       Impact factor: 7.290

6.  DNA enrichment and tagmentation method for species-level identification and strain-level differentiation using ON-rep-seq.

Authors:  Łukasz Krych; Josué L Castro-Mejía; Laura M Forero-Junco; Daniel N Moesby; Morten B Mikkelsen; Morten A Rasmussen; Maciej Sykulski; Dennis S Nielsen
Journal:  Commun Biol       Date:  2019-10-10

7.  Plant microbiome analysis after Metarhizium amendment reveals increases in abundance of plant growth-promoting organisms and maintenance of disease-suppressive soil.

Authors:  Larissa Barelli; Alison S Waller; Scott W Behie; Michael J Bidochka
Journal:  PLoS One       Date:  2020-04-10       Impact factor: 3.240

Review 8.  The Gut Microbiota in Cardiovascular Disease and Arterial Thrombosis.

Authors:  Anna Lässiger-Herfurth; Giulia Pontarollo; Alexandra Grill; Christoph Reinhardt
Journal:  Microorganisms       Date:  2019-12-13

Review 9.  Strain-level epidemiology of microbial communities and the human microbiome.

Authors:  Yan Yan; Long H Nguyen; Eric A Franzosa; Curtis Huttenhower
Journal:  Genome Med       Date:  2020-08-13       Impact factor: 11.117

10.  Design of Bacterial Strain-Specific qPCR Assays Using NGS Data and Publicly Available Resources and Its Application to Track Biocontrol Strains.

Authors:  Iker Hernández; Clara Sant; Raquel Martínez; Carolina Fernández
Journal:  Front Microbiol       Date:  2020-03-10       Impact factor: 5.640
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