High-quality draft genome sequence of the Thermus amyloliquefaciens type strain YIM 77409T with an incomplete denitrification pathway

En Min Zhou, Senthil K. Murugapiran, Chrisabelle C. Mefferd, Lan Liu, Wen Dong Xian, Yi Rui Yin, Hong Ming, Tian Tian Yu, Marcel Huntemann, Alicia Clum, Manoj Pillay, Krishnaveni Palaniappan, Neha Varghese, Natalia Mikhailova, Dimitrios Stamatis, T. B.K. Reddy, Chew Yee Ngan, Chris Daum, Nicole Shapiro, Victor MarkowitzNatalia Ivanova, Alexander Spunde, Nikos Kyrpides, Tanja Woyke, Wen Jun Li, Brian P. Hedlund

Research output: Contribution to journalArticlepeer-review

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Abstract

Thermus amyloliquefaciens type strain YIM 77409T is a thermophilic, Gram-negative, non-motile and rod-shaped bacterium isolated from Niujie Hot Spring in Eryuan County, Yunnan Province, southwest China. In the present study we describe the features of strain YIM 77409T together with its genome sequence and annotation. The genome is 2,160,855 bp long and consists of 6 scaffolds with 67.4 % average GC content. A total of 2,313 genes were predicted, comprising 2,257 protein-coding and 56 RNA genes. The genome is predicted to encode a complete glycolysis, pentose phosphate pathway, and tricarboxylic acid cycle. Additionally, a large number of transporters and enzymes for heterotrophy highlight the broad heterotrophic lifestyle of this organism. A denitrification gene cluster included genes predicted to encode enzymes for the sequential reduction of nitrate to nitrous oxide, consistent with the incomplete denitrification phenotype of this strain.

Original languageEnglish (US)
Article number20
JournalStandards in Genomic Sciences
Volume11
Issue number1
DOIs
StatePublished - Feb 27 2016

Bibliographical note

Funding Information:
The work conducted by the U.S. Department of Energy Joint Genome Institute, a DOE Office of Science User Facility, is supported by the Office of Science of the U.S. Department of Energy under Contract No. DE-AC02-05CH11231. Additional support was supported by the Key Project of International Cooperation of Ministry of Science & Technology (MOST) (No. 2013DFA31980), Natural Science Foundation of China (No. 31470139), National Science Foundation grant (OISE-0968421). E-M Zhou received the Scholarship Award for Excellent Doctoral Student granted by Yunnan Province, and China Scholarship Council (CSC, File No. 201307030004). W-J Li was also supported by the Guangdong Province Higher Vocational Colleges & Schools Pearl River Scholar Funded Scheme (2014). B.P. Hedlund was also funded by a gift from Greg Fullmer through the UNLV Foundation.

Publisher Copyright:
© 2016 Zhou et al.

Keywords

  • Denitrification
  • Hot springs
  • Thermophiles
  • Thermus
  • Thermus amyloliquefaciens

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