Literature DB >> 26092453

The United States Culture Collection Network (USCCN): Enhancing Microbial Genomics Research through Living Microbe Culture Collections.

Kyria Boundy-Mills1, Matthias Hess2, A Rick Bennett3, Matthew Ryan4, Seogchan Kang5, David Nobles6, Jonathan A Eisen7, Patrik Inderbitzin8, Irnayuli R Sitepu1, Tamas Torok9, Daniel R Brown10, Juliana Cho11, John E Wertz12, Supratim Mukherjee13, Sherry L Cady14, Kevin McCluskey15.   

Abstract

The mission of the United States Culture Collection Network (USCCN; http://usccn.org) is "to facilitate the safe and responsible utilization of microbial resources for research, education, industry, medicine, and agriculture for the betterment of human kind." Microbial culture collections are a key component of life science research, biotechnology, and emerging global biobased economies. Representatives and users of several microbial culture collections from the United States and Europe gathered at the University of California, Davis, to discuss how collections of microorganisms can better serve users and stakeholders and to showcase existing resources available in public culture collections.
Copyright © 2015, American Society for Microbiology. All Rights Reserved.

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Year:  2015        PMID： 26092453      PMCID： PMC4551257          DOI： 10.1128/AEM.01176-15

Source DB:  PubMed          Journal:  Appl Environ Microbiol        ISSN： 0099-2240            Impact factor:   4.792


  10 in total

1.  Culture collections.

Authors:  David Smith
Journal:  Adv Appl Microbiol       Date:  2012       Impact factor: 5.086

2.  The importance of sample archiving in microbial ecology.

Authors:  S Craig Cary; Noah Fierer
Journal:  Nat Rev Microbiol       Date:  2014-12       Impact factor: 60.633

3.  Yeast tolerance to the ionic liquid 1-ethyl-3-methylimidazolium acetate.

Authors:  Irnayuli R Sitepu; Shuang Shi; Blake A Simmons; Steven W Singer; Kyria Boundy-Mills; Christopher W Simmons
Journal:  FEMS Yeast Res       Date:  2014-11-12       Impact factor: 2.796

4.  Carbon source utilization and inhibitor tolerance of 45 oleaginous yeast species.

Authors:  Irnayuli Sitepu; Tylan Selby; Ting Lin; Shirley Zhu; Kyria Boundy-Mills
Journal:  J Ind Microbiol Biotechnol       Date:  2014-05-13       Impact factor: 3.346

5.  Identification of oleaginous yeast strains able to accumulate high intracellular lipids when cultivated in alkaline pretreated corn stover.

Authors:  Irnayuli R Sitepu; Mingjie Jin; J Enrique Fernandez; Leonardo da Costa Sousa; Venkatesh Balan; Kyria L Boundy-Mills
Journal:  Appl Microbiol Biotechnol       Date:  2014-07-23       Impact factor: 4.813

6.  A phylogeny-driven genomic encyclopaedia of Bacteria and Archaea.

Authors:  Dongying Wu; Philip Hugenholtz; Konstantinos Mavromatis; Rüdiger Pukall; Eileen Dalin; Natalia N Ivanova; Victor Kunin; Lynne Goodwin; Martin Wu; Brian J Tindall; Sean D Hooper; Amrita Pati; Athanasios Lykidis; Stefan Spring; Iain J Anderson; Patrik D'haeseleer; Adam Zemla; Mitchell Singer; Alla Lapidus; Matt Nolan; Alex Copeland; Cliff Han; Feng Chen; Jan-Fang Cheng; Susan Lucas; Cheryl Kerfeld; Elke Lang; Sabine Gronow; Patrick Chain; David Bruce; Edward M Rubin; Nikos C Kyrpides; Hans-Peter Klenk; Jonathan A Eisen
Journal:  Nature       Date:  2009-12-24       Impact factor: 49.962

7.  Putting cells to sleep for future science.

Authors:  Glyn N Stacey; John G Day
Journal:  Nat Biotechnol       Date:  2014-04       Impact factor: 54.908

8.  Rediscovery by Whole Genome Sequencing: Classical Mutations and Genome Polymorphisms in Neurospora crassa.

Authors:  Kevin McCluskey; Aric E Wiest; Igor V Grigoriev; Anna Lipzen; Joel Martin; Wendy Schackwitz; Scott E Baker
Journal:  G3 (Bethesda)       Date:  2011-09-01       Impact factor: 3.154

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

Authors:  Nikos C Kyrpides; Tanja Woyke; Jonathan A Eisen; George Garrity; Timothy G Lilburn; Brian J Beck; William B Whitman; Phil Hugenholtz; Hans-Peter Klenk
Journal:  Stand Genomic Sci       Date:  2013-12-17

Review 10.  Investment into the future of microbial resources: culture collection funding models and BRC business plans for biological resource centres.

Authors:  David Smith; Kevin McCluskey; Erko Stackebrandt
Journal:  Springerplus       Date:  2014-02-12
  10 in total
  10 in total

Review 1.  Public Microbial Resource Centers: Key Hubs for Findable, Accessible, Interoperable, and Reusable (FAIR) Microorganisms and Genetic Materials.

Authors:  P Becker; M Bosschaerts; P Chaerle; H-M Daniel; A Hellemans; A Olbrechts; L Rigouts; A Wilmotte; M Hendrickx
Journal:  Appl Environ Microbiol       Date:  2019-10-16       Impact factor: 4.792

Review 2.  Fungal biodiversity and conservation mycology in light of new technology, big data, and changing attitudes.

Authors:  Lotus A Lofgren; Jason E Stajich
Journal:  Curr Biol       Date:  2021-10-11       Impact factor: 10.900

3.  The challenges faced by living stock collections in the USA.

Authors:  Kevin McCluskey; Kyria Boundy-Mills; Greg Dye; Erin Ehmke; Gregg F Gunnell; Hippokratis Kiaris; Maxi Polihronakis Richmond; Anne D Yoder; Daniel R Zeigler; Sarah Zehr; Erich Grotewold
Journal:  Elife       Date:  2017-03-13       Impact factor: 8.140

Review 4.  A Review of Living Collections with Special Emphasis on Sustainability and Its Impact on Research Across Multiple Disciplines.

Authors:  Kevin McCluskey
Journal:  Biopreserv Biobank       Date:  2016-11-21       Impact factor: 2.300

5.  Genome-enabled phylogenetic and functional reconstruction of an araphid pennate diatom Plagiostriata sp. CCMP470, previously assigned as a radial centric diatom, and its bacterial commensal.

Authors:  Shinya Sato; Deepak Nanjappa; Richard G Dorrell; Fabio Rocha Jimenez Vieira; Elena Kazamia; Leila Tirichine; Alaguraj Veluchamy; Roland Heilig; Jean-Marc Aury; Olivier Jaillon; Patrick Wincker; Zoltan Fussy; Miroslav Obornik; Sergio A Muñoz-Gómez; David G Mann; Chris Bowler; Adriana Zingone
Journal:  Sci Rep       Date:  2020-06-10       Impact factor: 4.379

Review 6.  Preservation, Characterization and Exploitation of Microbial Biodiversity: The Perspective of the Italian Network of Culture Collections.

Authors:  Luciana De Vero; Maria Beatrice Boniotti; Marilena Budroni; Pietro Buzzini; Stefano Cassanelli; Roberta Comunian; Maria Gullo; Antonio F Logrieco; Ilaria Mannazzu; Rosario Musumeci; Iolanda Perugini; Giancarlo Perrone; Andrea Pulvirenti; Paolo Romano; Benedetta Turchetti; Giovanna Cristina Varese
Journal:  Microorganisms       Date:  2019-12-12

7.  Best Practices for Successfully Writing and Publishing a Genome Announcement in Microbiology Resource Announcements.

Authors:  Julie C Dunning Hotopp; David A Baltrus; Vincent M Bruno; John J Dennehy; Steven R Gill; Julia A Maresca; Jelle Matthijnssens; Irene L G Newton; Catherine Putonti; David A Rasko; Antonis Rokas; Simon Roux; Jason E Stajich; Kenneth M Stedman; Frank J Stewart; J Cameron Thrash
Journal:  Microbiol Resour Announc       Date:  2020-09-03

8.  Establishment of a Quality Management System Based on ISO 9001 Standard in a Public Service Fungal Culture Collection.

Authors:  Marta F Simões; Nicolina Dias; Cledir Santos; Nelson Lima
Journal:  Microorganisms       Date:  2016-06-22

Review 9.  Preserving US microbe collections sparks future discoveries.

Authors:  K Boundy-Mills; K McCluskey; P Elia; J A Glaeser; D L Lindner; D R Nobles; J Normanly; F M Ochoa-Corona; J A Scott; T J Ward; K M Webb; K Webster; J E Wertz
Journal:  J Appl Microbiol       Date:  2019-12-12       Impact factor: 3.772

10.  'Community evolution' - laboratory strains and pedigrees in the age of genomics.

Authors:  Matthew J Dorman; Nicholas R Thomson
Journal:  Microbiology (Reading)       Date:  2020-03       Impact factor: 2.777
  10 in total

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