High quality draft genome sequence of leucobacter chironomi strain MM2LBT (DSM 19883T) isolated from a chironomus sp. egg mass

Sivan Laviad; Alla Lapidus; Alex Copeland; T. B.K. Reddy; Marcel Huntemann; Amrita Pati; Natalia N. Ivanova; Victor M. Markowitz; Rüdiger Pukall; Hans Peter Klenk; Tanja Woyke; Nikos C. Kyrpides; Malka Halpern

doi:10.1186/s40793-015-0003-3

High quality draft genome sequence of leucobacter chironomi strain MM2LB^T (DSM 19883^T) isolated from a chironomus sp. egg mass

Sivan Laviad, Alla Lapidus, Alex Copeland, T. B.K. Reddy, Marcel Huntemann, Amrita Pati, Natalia N. Ivanova, Victor M. Markowitz, Rüdiger Pukall, Hans Peter Klenk, Tanja Woyke, Nikos C. Kyrpides, Malka Halpern

Research output: Contribution to journal › Article › peer-review

Abstract

Leucobacter chironomi strain MM2LB^T (Halpern et al., Int J Syst Evol Microbiol 59:665-70 2009) is a Gram-positive, rod shaped, non-motile, aerobic, chemoorganotroph bacterium. L. chironomi belongs to the family Microbacteriaceae, a family within the class Actinobacteria. Strain MM2LBT was isolated from a chironomid (Diptera; Chironomidae) egg mass that was sampled from a waste stabilization pond in northern Israel. In a phylogenetic tree based on 16S rRNA gene sequences, strain MM2LB^T formed a distinct branch within the radiation encompassing the genus Leucobacter. Here we describe the features of this organism, together with the complete genome sequence and annotation. The DNA GC content is 69.90%. The chromosome length is 2,964,712 bp. It encodes 2,690 proteins and 61 RNA genes. L. chironomi genome is part of the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG) project.

Original language	English
Journal	Standards in Genomic Sciences
Volume	10
Issue number	MAY2015
DOIs	https://doi.org/10.1186/s40793-015-0003-3
State	Published - 1 May 2015

Bibliographical note

Funding Information:
The authors gratefully acknowledge the assistance of Iris Brandes for growing L. chironomi cultures and Evelyne-Marie Brambilla for DNA extraction and quality control (both at the DSMZ). This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory under contract No. DE-AC02-05CH11231, A.L. The work was supported in part by Russian Ministry of Science Mega-grant no.11.G34.31.0068 (PI. Dr Stephen J O'Brien) and by a grant from the US Civilian Research and Development Foundation (CRDF grant no. ILB1-7045-HA) (PI. Prof. Malka Halpern).

Publisher Copyright:
© 2015 Laviad et al.

Keywords

Chironomid
Chironomus
Egg mass
Hexavalent chromium
Leucobacter chironomi
Microbacteriaceae

ASJC Scopus subject areas

Genetics

Access to Document

10.1186/s40793-015-0003-3

Cite this

Laviad, S., Lapidus, A., Copeland, A., Reddy, T. B. K., Huntemann, M., Pati, A., Ivanova, N. N., Markowitz, V. M., Pukall, R., Klenk, H. P., Woyke, T., Kyrpides, N. C., & Halpern, M. (2015). High quality draft genome sequence of leucobacter chironomi strain MM2LB^T (DSM 19883^T) isolated from a chironomus sp. egg mass. Standards in Genomic Sciences, 10(MAY2015). https://doi.org/10.1186/s40793-015-0003-3

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title = "High quality draft genome sequence of leucobacter chironomi strain MM2LBT (DSM 19883T) isolated from a chironomus sp. egg mass",

abstract = "Leucobacter chironomi strain MM2LBT (Halpern et al., Int J Syst Evol Microbiol 59:665-70 2009) is a Gram-positive, rod shaped, non-motile, aerobic, chemoorganotroph bacterium. L. chironomi belongs to the family Microbacteriaceae, a family within the class Actinobacteria. Strain MM2LBT was isolated from a chironomid (Diptera; Chironomidae) egg mass that was sampled from a waste stabilization pond in northern Israel. In a phylogenetic tree based on 16S rRNA gene sequences, strain MM2LBT formed a distinct branch within the radiation encompassing the genus Leucobacter. Here we describe the features of this organism, together with the complete genome sequence and annotation. The DNA GC content is 69.90%. The chromosome length is 2,964,712 bp. It encodes 2,690 proteins and 61 RNA genes. L. chironomi genome is part of the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG) project.",

keywords = "Chironomid, Chironomus, Egg mass, Hexavalent chromium, Leucobacter chironomi, Microbacteriaceae",

author = "Sivan Laviad and Alla Lapidus and Alex Copeland and Reddy, {T. B.K.} and Marcel Huntemann and Amrita Pati and Ivanova, {Natalia N.} and Markowitz, {Victor M.} and R{\"u}diger Pukall and Klenk, {Hans Peter} and Tanja Woyke and Kyrpides, {Nikos C.} and Malka Halpern",

note = "Funding Information: The authors gratefully acknowledge the assistance of Iris Brandes for growing L. chironomi cultures and Evelyne-Marie Brambilla for DNA extraction and quality control (both at the DSMZ). This work was performed under the auspices of the US Department of Energy's Office of Science, Biological and Environmental Research Program, and by the University of California, Lawrence Berkeley National Laboratory under contract No. DE-AC02-05CH11231, A.L. The work was supported in part by Russian Ministry of Science Mega-grant no.11.G34.31.0068 (PI. Dr Stephen J O'Brien) and by a grant from the US Civilian Research and Development Foundation (CRDF grant no. ILB1-7045-HA) (PI. Prof. Malka Halpern). Publisher Copyright: {\textcopyright} 2015 Laviad et al.",

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Laviad, S, Lapidus, A, Copeland, A, Reddy, TBK, Huntemann, M, Pati, A, Ivanova, NN, Markowitz, VM, Pukall, R, Klenk, HP, Woyke, T, Kyrpides, NC & Halpern, M 2015, 'High quality draft genome sequence of leucobacter chironomi strain MM2LB^T (DSM 19883^T) isolated from a chironomus sp. egg mass', Standards in Genomic Sciences, vol. 10, no. MAY2015. https://doi.org/10.1186/s40793-015-0003-3

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AU - Lapidus, Alla

AU - Copeland, Alex

AU - Reddy, T. B.K.

AU - Huntemann, Marcel

AU - Pati, Amrita

AU - Ivanova, Natalia N.

AU - Markowitz, Victor M.

AU - Pukall, Rüdiger

AU - Klenk, Hans Peter

AU - Woyke, Tanja

AU - Kyrpides, Nikos C.

AU - Halpern, Malka

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N2 - Leucobacter chironomi strain MM2LBT (Halpern et al., Int J Syst Evol Microbiol 59:665-70 2009) is a Gram-positive, rod shaped, non-motile, aerobic, chemoorganotroph bacterium. L. chironomi belongs to the family Microbacteriaceae, a family within the class Actinobacteria. Strain MM2LBT was isolated from a chironomid (Diptera; Chironomidae) egg mass that was sampled from a waste stabilization pond in northern Israel. In a phylogenetic tree based on 16S rRNA gene sequences, strain MM2LBT formed a distinct branch within the radiation encompassing the genus Leucobacter. Here we describe the features of this organism, together with the complete genome sequence and annotation. The DNA GC content is 69.90%. The chromosome length is 2,964,712 bp. It encodes 2,690 proteins and 61 RNA genes. L. chironomi genome is part of the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG) project.

AB - Leucobacter chironomi strain MM2LBT (Halpern et al., Int J Syst Evol Microbiol 59:665-70 2009) is a Gram-positive, rod shaped, non-motile, aerobic, chemoorganotroph bacterium. L. chironomi belongs to the family Microbacteriaceae, a family within the class Actinobacteria. Strain MM2LBT was isolated from a chironomid (Diptera; Chironomidae) egg mass that was sampled from a waste stabilization pond in northern Israel. In a phylogenetic tree based on 16S rRNA gene sequences, strain MM2LBT formed a distinct branch within the radiation encompassing the genus Leucobacter. Here we describe the features of this organism, together with the complete genome sequence and annotation. The DNA GC content is 69.90%. The chromosome length is 2,964,712 bp. It encodes 2,690 proteins and 61 RNA genes. L. chironomi genome is part of the Genomic Encyclopedia of Type Strains, Phase I: the one thousand microbial genomes (KMG) project.

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