Open Access

GigaScience

, volume 7 , issue 5

The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species

Linhuan Wu ^{1, 2, 3}

Kevin M. McCluskey ^{4, 5}

Desmeth Philippe ^{4, 6}

Shuang-Jiang Liu ^{2, 4}

Hideaki Sugawara ⁷

Yin Ye ⁸

Moriya Ohkuma ⁹

Takashi Itoh ⁹

Cha Young Kim ¹⁰

Jung-Sook Lee ¹⁰

Yuguang Zhou ¹¹

Hiroko Kawasaki ¹²

Manzour Hernando Hazbón ¹³

Vincent Robert ¹⁴

Teun Boekhout ^{14, 15, 16}

Nelson G Lima ¹⁷

Lyudmila Evtushenko ¹⁸

Kyria Boundy Mills ^{4, 19}

Boyke Bunk ²⁰

Edward W. Moore ²¹

Lily Eurwilaichitr ^{4, 22}

Supawadee Ingsriswang ²²

Heena Shah ²³

Su Yao ²⁴

Tao Jin ⁸

Jinqun Huang ⁸

Wenyu Shi ¹

Qinglan Sun ¹

Guomei Fan ¹

Wei Li ¹

Xian Li ¹

D. İpek Kurtböke ^{4, 25}

Juncai Ma ^{1, 2, 3, 4}

Hide authors affiliations Show authors affiliations: 25 affiliations

Microbial Resource and Big Data Center, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China |

State Key Laboratory of Microbial Resources, Institute of Microbiology, Chinese Academy of Sciences, Beijing 100101, China |

WFCC-MIRCEN World Data Center for Microorganisms, Beijing 100101, China |

⁴

World Federation of Culture Collections (WFCC)

⁵

Fungal Genetics Stock Center, Kansas State University, Manhattan, KS 66506, USA |

⁶

Belgian Coordinated Collections of Micro-organisms Program, Belgian Science Policy Office, Brussels 231 1050, Belgium |

⁷

National Institute of Genetics, Yata, Mishima 411-8540, Japan |

⁸

BGI genomics, BGI-Shenzhen, Shenzhen 518083, China |

⁹

Japan Collection of Microorganisms/Microbe Division, RIKEN BioResource Center, Koyadai 3-1-1, Tsukuba, Ibaraki 305-0074, Japan |

¹⁰

Korean Collection for Type Cultures, Korea Research Institute of Bioscience and Biotechnology (KRIBB), 181 Ipsin-gil, Jeongeup-si, Jeollabuk-do, 56212, Republic of Korea |

¹¹

China General Microbiological Culture Collection Center, Institute of Microbiology, Chinese Academy of Sciences, Beijing10010, China |

¹²

NITE Biological Resource Center, National Institute of Technology and Evaluation, 2-5-8 Kazusakamatari, Kisarazu, Chiba 292-0818, Japan |

¹³

American Type Culture Collection, 10801 University Boulevard, Manassas, VA 20110, USA |

¹⁴

Westerdijk Fungal Biodiversity Institue, Utrecht 3534CT, Netherlands |

¹⁵

Institute of Biodiversity and Ecosystem Dynamics, University of Amsterdam, Spui 21 1012 WX Amsterdam, Netherlands |

¹⁶

Shanghai Key Laboratory of Molecular Medical Mycology, Shanghai Institute of Mycology, Shanghai Changzheng Hospital, Shanghai 200003, China |

¹⁷

Micoteca da Universidade do Minho, Biological Engineering Centre, 4710-057 Braga, Portugal |

¹⁸

All-Russian Collection of Microorganisms, GK Skryabin Institute of Biochemistry and Physiology of Microorganisms RAS, Pushchino, Moscow Region 142290, Russia |

¹⁹

Phaff Yeast Culture Collection, Food Science and Technology Department, University of California Davis, 1 Shields Avenue, Davis, CA 95616–8598, USA |

²⁰

Leibniz-Institute DSMZ – German Collection of Microorganisms and Cell Cultures, D-38124 Braunschweig, Germany |

²¹

Culture Collection University of Gothenburg (CCUG), Sahlgrenska Academy of the University of Gothenburg, SE-41346 Gothenburg, Sweden |

²²

Bioresources Technology Unit, Thailand Bioresource Research Center, National Center for Genetic Engineering and Biotechnology, Bangkok National Science and Technology Development Agency, 113, Thailand

National Center for Genetic Engineering and Biotechnology

National Science and Technology Development Agency

²³

National Collection of Type Cultures, Public Health England, Porton Down, Salisbury, Wiltshire SP4 0JG, UK |

²⁴

China Center of Industrial Culture Collection, Beijing 100015, China |

²⁵

Faculty of Science, Health, Education and Engineering, University of the Sunshine Coast, Maroochydore, Queensland 4558, Australia |

Publication type: Journal Article

Publication date: 2018-03-22

Oxford University Press

GigaScience

scimago Q1

wos Q1

SJR: 5.314

CiteScore: 20.0

Impact factor: 3.9

ISSN: 2047217X

DOI: 10.1093/gigascience/giy026

Copy DOI

PubMed ID: 29718202

Computer Science Applications

Health Informatics

Abstract

Abstract Genomic information is essential for taxonomic, phylogenetic, and functional studies to comprehensively decipher the characteristics of microorganisms, to explore microbiomes through metagenomics, and to answer fundamental questions of nature and human life. However, large gaps remain in the available genomic sequencing information published for bacterial and archaeal species, and the gaps are even larger for fungal type strains. The Global Catalogue of Microorganisms (GCM) leads an internationally coordinated effort to sequence type strains and close gaps in the genomic maps of microorganisms. Hence, the GCM aims to promote research by deep-mining genomic data.

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GOST |

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GOST Copy

Wu L. et al. The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species // GigaScience. 2018. Vol. 7. No. 5.

GOST all authors (up to 50) Copy

Wu L., McCluskey K. M., Philippe D., Liu S., Sugawara H., Ye Y., Ohkuma M., Itoh T., Kim C. Y., Lee J., Zhou Y., Kawasaki H., Hazbón M. H., Robert V., Boekhout T., Lima N. G., Evtushenko L., Boundy Mills K., Bunk B., Moore E. W., Eurwilaichitr L., Ingsriswang S., Shah H., Yao S., Jin T., Huang J., Shi W., Sun Q., Fan G., Li W., Li X., Kurtböke D. İ., Ma J. The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species // GigaScience. 2018. Vol. 7. No. 5.

RIS |

Cite this

RIS Copy

TY - JOUR

DO - 10.1093/gigascience/giy026

UR - https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giy026/4951733

TI - The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species

T2 - GigaScience

AU - Wu, Linhuan

AU - McCluskey, Kevin M.

AU - Philippe, Desmeth

AU - Liu, Shuang-Jiang

AU - Sugawara, Hideaki

AU - Ye, Yin

AU - Ohkuma, Moriya

AU - Itoh, Takashi

AU - Kim, Cha Young

AU - Lee, Jung-Sook

AU - Zhou, Yuguang

AU - Kawasaki, Hiroko

AU - Hazbón, Manzour Hernando

AU - Robert, Vincent

AU - Boekhout, Teun

AU - Lima, Nelson G

AU - Evtushenko, Lyudmila

AU - Boundy Mills, Kyria

AU - Bunk, Boyke

AU - Moore, Edward W.

AU - Eurwilaichitr, Lily

AU - Ingsriswang, Supawadee

AU - Shah, Heena

AU - Yao, Su

AU - Jin, Tao

AU - Huang, Jinqun

AU - Shi, Wenyu

AU - Sun, Qinglan

AU - Fan, Guomei

AU - Li, Wei

AU - Li, Xian

AU - Kurtböke, D. İpek

AU - Ma, Juncai

PY - 2018

DA - 2018/03/22

PB - Oxford University Press

IS - 5

VL - 7

PMID - 29718202

SN - 2047-217X

ER -

BibTex

Cite this

BibTex (up to 50 authors) Copy

@article{2018_Wu,

author = {Linhuan Wu and Kevin M. McCluskey and Desmeth Philippe and Shuang-Jiang Liu and Hideaki Sugawara and Yin Ye and Moriya Ohkuma and Takashi Itoh and Cha Young Kim and Jung-Sook Lee and Yuguang Zhou and Hiroko Kawasaki and Manzour Hernando Hazbón and Vincent Robert and Teun Boekhout and Nelson G Lima and Lyudmila Evtushenko and Kyria Boundy Mills and Boyke Bunk and Edward W. Moore and Lily Eurwilaichitr and Supawadee Ingsriswang and Heena Shah and Su Yao and Tao Jin and Jinqun Huang and Wenyu Shi and Qinglan Sun and Guomei Fan and Wei Li and Xian Li and D. İpek Kurtböke and Juncai Ma},

title = {The global catalogue of microorganisms 10K type strain sequencing project: closing the genomic gaps for the validly published prokaryotic and fungi species},

journal = {GigaScience},

year = {2018},

volume = {7},

publisher = {Oxford University Press},

month = {mar},

url = {https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giy026/4951733},

number = {5},

doi = {10.1093/gigascience/giy026}

}

Publisher

Oxford University Press

Journal

GigaScience

scimago Q1

wos Q1

SJR

5.314

CiteScore

20.0

Impact factor

3.9

ISSN

2047217X (Electronic)

Labs

All-Russian Collection of Microorganisms (VKM)

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