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Title: Complete genome sequence of Isosphaera pallida type strain (IS1BT)

Abstract

Isosphaera pallida (ex Woronichin 1927) Giovannoni et al. 1995 is the type species of the genus Isosphaera. The species is of interest because it was the first heterotrophic bacterium known to be phototactic, and it occupies an isolated phylogenetic position within the Planctomycetaceae. Here we describe the features of this organism, together with the complete genome sequence and annotation. This is the first complete genome sequence of a member of the genus Isosphaera and the third of a member of the family Planctomycetaceae. The 5,472,964 bp long chromosome and the 56,340 bp long plasmid with a total of 3,763 protein-coding and 60 RNA genes are part of the Genomic Encyclopedia of Bacteria and Archaea project.

Authors:
 [1];  [2];  [3];  [4];  [4];  [4];  [4];  [4];  [4];  [3];  [3];  [3];  [4];  [4];  [4];  [4];  [4];  [4];  [5];  [5] more »;  [6];  [6];  [6];  [6];  [3];  [2];  [4];  [4];  [7];  [5];  [8];  [4];  [1] « less
+ Show Author Affiliations
  1. German Collection of Microorganisms and Cell Cultures, Braunschweig (Germany)
  2. American Type Culture Collection (ATCC), Manassas, VA (United States)
  3. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Los Alamos National Lab. (LANL), Los Alamos, NM (United States)
  4. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States)
  5. Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States)
  6. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)
  7. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Univ. of California, Davis, CA (United States)
  8. USDOE Joint Genome Institute (JGI), Walnut Creek, CA (United States); Univ. of Queensland, Brisbane, QLD (Australia)
Publication Date:
Research Org.:
Lawrence Berkeley National Laboratory (LBNL), Berkeley, CA (United States)
Sponsoring Org.:
USDOE Office of Science (SC), Biological and Environmental Research (BER)
OSTI Identifier:
1630559
Grant/Contract Number:  
AC02-05CH11231; AC52-07NA27344; AC02-06NA25396; AC05-00OR22725
Resource Type:
Accepted Manuscript
Journal Name:
Standards in Genomic Sciences
Additional Journal Information:
Journal Volume: 4; Journal Issue: 1; Journal ID: ISSN 1944-3277
Publisher:
BioMed Central
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; thermophilic; aerobic; filamentous; budding; gliding motility; Gram-negative; phototactic comets; gas vesicles; chemoheterotrophic; hot spring; Planctomycetaceae; GEBA

Citation Formats

Göker, Markus, Cleland, David, Saunders, Elizabeth, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxane, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mavromatis, Konstantinos, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Detter, John C., Beck, Brian, Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C., and Klenk, Hans-Peter. Complete genome sequence of Isosphaera pallida type strain (IS1BT). United States: N. p., 2011. Web. doi:10.4056/sigs.1533840.
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Göker, Markus, Cleland, David, Saunders, Elizabeth, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxane, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mavromatis, Konstantinos, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Detter, John C., Beck, Brian, Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C., & Klenk, Hans-Peter. Complete genome sequence of Isosphaera pallida type strain (IS1BT). United States. https://doi.org/10.4056/sigs.1533840
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Göker, Markus, Cleland, David, Saunders, Elizabeth, Lapidus, Alla, Nolan, Matt, Lucas, Susan, Hammon, Nancy, Deshpande, Shweta, Cheng, Jan-Fang, Tapia, Roxane, Han, Cliff, Goodwin, Lynne, Pitluck, Sam, Liolios, Konstantinos, Pagani, Ioanna, Ivanova, Natalia, Mavromatis, Konstantinos, Pati, Amrita, Chen, Amy, Palaniappan, Krishna, Land, Miriam, Hauser, Loren, Chang, Yun-Juan, Jeffries, Cynthia D., Detter, John C., Beck, Brian, Woyke, Tanja, Bristow, James, Eisen, Jonathan A., Markowitz, Victor, Hugenholtz, Philip, Kyrpides, Nikos C., and Klenk, Hans-Peter. Fri . "Complete genome sequence of Isosphaera pallida type strain (IS1BT)". United States. https://doi.org/10.4056/sigs.1533840. https://www.osti.gov/servlets/purl/1630559.
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@article{osti_1630559,
title = {Complete genome sequence of Isosphaera pallida type strain (IS1BT)},
author = {Göker, Markus and Cleland, David and Saunders, Elizabeth and Lapidus, Alla and Nolan, Matt and Lucas, Susan and Hammon, Nancy and Deshpande, Shweta and Cheng, Jan-Fang and Tapia, Roxane and Han, Cliff and Goodwin, Lynne and Pitluck, Sam and Liolios, Konstantinos and Pagani, Ioanna and Ivanova, Natalia and Mavromatis, Konstantinos and Pati, Amrita and Chen, Amy and Palaniappan, Krishna and Land, Miriam and Hauser, Loren and Chang, Yun-Juan and Jeffries, Cynthia D. and Detter, John C. and Beck, Brian and Woyke, Tanja and Bristow, James and Eisen, Jonathan A. and Markowitz, Victor and Hugenholtz, Philip and Kyrpides, Nikos C. and Klenk, Hans-Peter},
abstractNote = {Isosphaera pallida (ex Woronichin 1927) Giovannoni et al. 1995 is the type species of the genus Isosphaera. The species is of interest because it was the first heterotrophic bacterium known to be phototactic, and it occupies an isolated phylogenetic position within the Planctomycetaceae. Here we describe the features of this organism, together with the complete genome sequence and annotation. This is the first complete genome sequence of a member of the genus Isosphaera and the third of a member of the family Planctomycetaceae. The 5,472,964 bp long chromosome and the 56,340 bp long plasmid with a total of 3,763 protein-coding and 60 RNA genes are part of the Genomic Encyclopedia of Bacteria and Archaea project.},
doi = {10.4056/sigs.1533840},
journal = {Standards in Genomic Sciences},
number = 1,
volume = 4,
place = {United States},
year = {Fri Mar 04 00:00:00 EST 2011},
month = {Fri Mar 04 00:00:00 EST 2011}
}
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Journal Article:
Free Publicly Available Full Text
Publisher's Version of Record
https://doi.org/10.4056/sigs.1533840
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Cited by: 31 works
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Figures / Tables:

Figure 1 Figure 1: Phylogenetic tree highlighting the position of I. pallida relative to the other type strains within the class family Planctomycetacia. The tree was inferred from 1,362 aligned characters of the 16S rRNA gene sequence under the maximum likelihood criterion and rooted in with members of the class Phycisphaerae. Themore » branches are scaled in terms of the expected number of substitutions per site. Numbers above branches are support values from 450 bootstrap replicates if larger than 60%. Lineages with type strain genome sequencing projects registered in GOLD are shown in blue, published genomes in bold.« less
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    Works referencing / citing this record:

    Toward the Development of Genetic Tools for Planctomycetes
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    From genome mining to phenotypic microarrays: Planctomycetes as source for novel bioactive molecules
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    Assembly of a complete genome sequence for Gemmata obscuriglobus reveals a novel prokaryotic rRNA operon gene architecture
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    Description of Gramella forsetii sp. nov., a marine Flavobacteriaceae isolated from North Sea water, and emended description of Gramella gaetbulicola Cho et al. 2011
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    A unique fungal strain collection from Vietnam characterized for high performance degraders of bioecological important biopolymers and lipids
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    Genome-Scale Data Call for a Taxonomic Rearrangement of Geodermatophilaceae
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    • Frontiers in Microbiology, Vol. 8
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