Literature DB >> 25091868

Recent advances in genomic DNA sequencing of microbial species from single cells.

Roger S Lasken1, Jeffrey S McLean2.   

Abstract

The vast majority of microbial species remain uncultivated and, until recently, about half of all known bacterial phyla were identified only from their 16S ribosomal RNA gene sequence. With the advent of single-cell sequencing, genomes of uncultivated species are rapidly filling in unsequenced branches of the microbial phylogenetic tree. The wealth of new insights gained from these previously inaccessible groups is providing a deeper understanding of their basic biology, taxonomy and evolution, as well as their diverse roles in environmental ecosystems and human health.

Entities:  

Mesh:

Substances:

Year:  2014        PMID: 25091868      PMCID: PMC4454502          DOI: 10.1038/nrg3785

Source DB:  PubMed          Journal:  Nat Rev Genet        ISSN: 1471-0056            Impact factor:   53.242


  44 in total

1.  Genomic DNA amplification from a single bacterium.

Authors:  Arumugham Raghunathan; Harley R Ferguson; Carole J Bornarth; Wanmin Song; Mark Driscoll; Roger S Lasken
Journal:  Appl Environ Microbiol       Date:  2005-06       Impact factor: 4.792

2.  Sequencing genomes from single cells by polymerase cloning.

Authors:  Kun Zhang; Adam C Martiny; Nikos B Reppas; Kerrie W Barry; Joel Malek; Sallie W Chisholm; George M Church
Journal:  Nat Biotechnol       Date:  2006-05-28       Impact factor: 54.908

3.  Targeted access to the genomes of low-abundance organisms in complex microbial communities.

Authors:  Mircea Podar; Carl B Abulencia; Marion Walcher; Don Hutchison; Karsten Zengler; Joseph A Garcia; Trevin Holland; David Cotton; Loren Hauser; Martin Keller
Journal:  Appl Environ Microbiol       Date:  2007-03-16       Impact factor: 4.792

4.  Dissecting biological "dark matter" with single-cell genetic analysis of rare and uncultivated TM7 microbes from the human mouth.

Authors:  Yann Marcy; Cleber Ouverney; Elisabeth M Bik; Tina Lösekann; Natalia Ivanova; Hector Garcia Martin; Ernest Szeto; Darren Platt; Philip Hugenholtz; David A Relman; Stephen R Quake
Journal:  Proc Natl Acad Sci U S A       Date:  2007-07-09       Impact factor: 11.205

5.  Marine biofilms on submerged surfaces are a reservoir for Escherichia coli and Vibrio cholerae.

Authors:  Nicholas J Shikuma; Michael G Hadfield
Journal:  Biofouling       Date:  2010-01       Impact factor: 3.209

6.  Interaction between bacteriophage DMS3 and host CRISPR region inhibits group behaviors of Pseudomonas aeruginosa.

Authors:  Michael E Zegans; Jeffrey C Wagner; Kyle C Cady; Daniel M Murphy; John H Hammond; George A O'Toole
Journal:  J Bacteriol       Date:  2008-10-24       Impact factor: 3.490

Review 7.  Transmission of Helicobacter pylori and the role of water and biofilms.

Authors:  Steven L Percival; John G Thomas
Journal:  J Water Health       Date:  2009-09       Impact factor: 1.744

Review 8.  Biofilms: the environmental playground of Legionella pneumophila.

Authors:  Priscilla Declerck
Journal:  Environ Microbiol       Date:  2009-08-12       Impact factor: 5.491

9.  Nanoliter reactors improve multiple displacement amplification of genomes from single cells.

Authors:  Yann Marcy; Thomas Ishoey; Roger S Lasken; Timothy B Stockwell; Brian P Walenz; Aaron L Halpern; Karen Y Beeson; Susanne M D Goldberg; Stephen R Quake
Journal:  PLoS Genet       Date:  2007-09       Impact factor: 5.917

10.  Insights into the genome of large sulfur bacteria revealed by analysis of single filaments.

Authors:  Marc Mussmann; Fen Z Hu; Michael Richter; Dirk de Beer; André Preisler; Bo B Jørgensen; Marcel Huntemann; Frank Oliver Glöckner; Rudolf Amann; Werner J H Koopman; Roger S Lasken; Benjamin Janto; Justin Hogg; Paul Stoodley; Robert Boissy; Garth D Ehrlich
Journal:  PLoS Biol       Date:  2007-09       Impact factor: 8.029

View more
  59 in total

1.  Single cells within the Puerto Rico trench suggest hadal adaptation of microbial lineages.

Authors:  Rosa León-Zayas; Mark Novotny; Sheila Podell; Charles M Shepard; Eric Berkenpas; Sergey Nikolenko; Pavel Pevzner; Roger S Lasken; Douglas H Bartlett
Journal:  Appl Environ Microbiol       Date:  2015-09-18       Impact factor: 4.792

2.  hybridSPAdes: an algorithm for hybrid assembly of short and long reads.

Authors:  Dmitry Antipov; Anton Korobeynikov; Jeffrey S McLean; Pavel A Pevzner
Journal:  Bioinformatics       Date:  2015-11-20       Impact factor: 6.937

Review 3.  Single-cell genome sequencing: current state of the science.

Authors:  Charles Gawad; Winston Koh; Stephen R Quake
Journal:  Nat Rev Genet       Date:  2016-01-25       Impact factor: 53.242

Review 4.  Advances and applications of single-cell sequencing technologies.

Authors:  Yong Wang; Nicholas E Navin
Journal:  Mol Cell       Date:  2015-05-21       Impact factor: 17.970

Review 5.  The dormant blood microbiome in chronic, inflammatory diseases.

Authors:  Marnie Potgieter; Janette Bester; Douglas B Kell; Etheresia Pretorius
Journal:  FEMS Microbiol Rev       Date:  2015-05-03       Impact factor: 16.408

6.  Cultivation of a human-associated TM7 phylotype reveals a reduced genome and epibiotic parasitic lifestyle.

Authors:  Xuesong He; Jeffrey S McLean; Anna Edlund; Shibu Yooseph; Adam P Hall; Su-Yang Liu; Pieter C Dorrestein; Eduardo Esquenazi; Ryan C Hunter; Genhong Cheng; Karen E Nelson; Renate Lux; Wenyuan Shi
Journal:  Proc Natl Acad Sci U S A       Date:  2014-12-22       Impact factor: 11.205

Review 7.  Metagenomics Approaches in Discovery and Development of New Bioactive Compounds from Marine Actinomycetes.

Authors:  Gyana Prakash Mahapatra; Surabhi Raman; Suman Nayak; Sushanto Gouda; Gitishree Das; Jayanta Kumar Patra
Journal:  Curr Microbiol       Date:  2019-05-08       Impact factor: 2.188

8.  Frequency-based haplotype reconstruction from deep sequencing data of bacterial populations.

Authors:  Sergio Pulido-Tamayo; Aminael Sánchez-Rodríguez; Toon Swings; Bram Van den Bergh; Akanksha Dubey; Hans Steenackers; Jan Michiels; Jan Fostier; Kathleen Marchal
Journal:  Nucleic Acids Res       Date:  2015-05-18       Impact factor: 16.971

Review 9.  Performing Skin Microbiome Research: A Method to the Madness.

Authors:  Heidi H Kong; Björn Andersson; Thomas Clavel; John E Common; Scott A Jackson; Nathan D Olson; Julia A Segre; Claudia Traidl-Hoffmann
Journal:  J Invest Dermatol       Date:  2017-01-04       Impact factor: 8.551

Review 10.  Evolution and population genomics of the Lyme borreliosis pathogen, Borrelia burgdorferi.

Authors:  Stephanie N Seifert; Camilo E Khatchikian; Wei Zhou; Dustin Brisson
Journal:  Trends Genet       Date:  2015-03-09       Impact factor: 11.639

View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.