skip to main content
OSTI.GOV title logo U.S. Department of Energy
Office of Scientific and Technical Information

Title: The Genome of Deep-Sea Vent Chemolithoautotroph Thiomicrospira crunogena XCL-2

Abstract

Presented here is the complete genome sequence of Thiomicrospira crunogena XCL-2, representative of ubiquitous chemolithoautotrophic sulfur-oxidizing bacteria isolated from deep-sea hydrothermal vents. This gammaproteobacterium has a single chromosome (2,427,734 bp), and its genome illustrates many of the adaptations that have enabled it to thrive at vents globally. It has 14 methyl-accepting chemotaxis protein genes, including four that may assist in positioning it in the redoxcline. A relative abundance of CDSs encoding regulatory proteins likely control the expression of genes encoding carboxysomes, multiple dissolved inorganic nitrogen and phosphate transporters, as well as a phosphonate operon, which provide this species with a variety of options for acquiring these substrates from the environment. T. crunogena XCL-2 is unusual among obligate sulfur oxidizing bacteria in relying on the Sox system for the oxidation of reduced sulfur compounds. A 38 kb prophage is present, and a high level of prophage induction was observed, which may play a role in keeping competing populations of close relatives in check. The genome has characteristics consistent with an obligately chemolithoautotrophic lifestyle, including few transporters predicted to have organic allocrits, and Calvin-Benson-Bassham cycle CDSs scattered throughout the genome.

Authors:
; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; more »; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; ; « less
Publication Date:
Research Org.:
Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States)
Sponsoring Org.:
USDOE
OSTI Identifier:
907862
Report Number(s):
UCRL-JRNL-227471
TRN: US200721%%432
DOE Contract Number:  
W-7405-ENG-48
Resource Type:
Journal Article
Journal Name:
PLos Biology, vol. 4, no. 12, November 14, 2006, pp. 383
Additional Journal Information:
Journal Volume: 4; Journal Issue: 12
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; ABUNDANCE; CHROMOSOMES; GENES; INDUCTION; NITROGEN; OXIDATION; PHOSPHATES; PHOSPHONATES; POSITIONING; PROTEINS; SUBSTRATES; SULFUR COMPOUNDS; SULFUR-OXIDIZING BACTERIA

Citation Formats

Scott, K M, Sievert, S M, Abril, F N, Ball, L A, Barrett, C J, Blake, R A, Boller, A J, Chain, P G, Clark, J A, Davis, C R, Detter, C, Do, K F, Dobrinski, K P, Faza, B I, Fitzpatrick, K A, Freyermuth, S K, Harmer, T L, Hauser, L J, Hugler, M, Kerfeld, C A, Klotz, M G, Kong, W W, Land, M, Lapidus, A, Larimer, F W, Longo, D L, Lucas, S, Malfatti, S A, Massey, S E, Martin, D D, McCuddin, Z, Meyer, F, Moore, J L, Ocampo, Jr, L H, Paul, J H, Paulsen, I T, Reep, D K, Ren, Q, Ross, R L, Sato, P Y, Thomas, P, Tinkham, L E, and Zerugh, G T. The Genome of Deep-Sea Vent Chemolithoautotroph Thiomicrospira crunogena XCL-2. United States: N. p., 2007. Web.
Scott, K M, Sievert, S M, Abril, F N, Ball, L A, Barrett, C J, Blake, R A, Boller, A J, Chain, P G, Clark, J A, Davis, C R, Detter, C, Do, K F, Dobrinski, K P, Faza, B I, Fitzpatrick, K A, Freyermuth, S K, Harmer, T L, Hauser, L J, Hugler, M, Kerfeld, C A, Klotz, M G, Kong, W W, Land, M, Lapidus, A, Larimer, F W, Longo, D L, Lucas, S, Malfatti, S A, Massey, S E, Martin, D D, McCuddin, Z, Meyer, F, Moore, J L, Ocampo, Jr, L H, Paul, J H, Paulsen, I T, Reep, D K, Ren, Q, Ross, R L, Sato, P Y, Thomas, P, Tinkham, L E, & Zerugh, G T. The Genome of Deep-Sea Vent Chemolithoautotroph Thiomicrospira crunogena XCL-2. United States.
Scott, K M, Sievert, S M, Abril, F N, Ball, L A, Barrett, C J, Blake, R A, Boller, A J, Chain, P G, Clark, J A, Davis, C R, Detter, C, Do, K F, Dobrinski, K P, Faza, B I, Fitzpatrick, K A, Freyermuth, S K, Harmer, T L, Hauser, L J, Hugler, M, Kerfeld, C A, Klotz, M G, Kong, W W, Land, M, Lapidus, A, Larimer, F W, Longo, D L, Lucas, S, Malfatti, S A, Massey, S E, Martin, D D, McCuddin, Z, Meyer, F, Moore, J L, Ocampo, Jr, L H, Paul, J H, Paulsen, I T, Reep, D K, Ren, Q, Ross, R L, Sato, P Y, Thomas, P, Tinkham, L E, and Zerugh, G T. 2007. "The Genome of Deep-Sea Vent Chemolithoautotroph Thiomicrospira crunogena XCL-2". United States. https://www.osti.gov/servlets/purl/907862.
@article{osti_907862,
title = {The Genome of Deep-Sea Vent Chemolithoautotroph Thiomicrospira crunogena XCL-2},
author = {Scott, K M and Sievert, S M and Abril, F N and Ball, L A and Barrett, C J and Blake, R A and Boller, A J and Chain, P G and Clark, J A and Davis, C R and Detter, C and Do, K F and Dobrinski, K P and Faza, B I and Fitzpatrick, K A and Freyermuth, S K and Harmer, T L and Hauser, L J and Hugler, M and Kerfeld, C A and Klotz, M G and Kong, W W and Land, M and Lapidus, A and Larimer, F W and Longo, D L and Lucas, S and Malfatti, S A and Massey, S E and Martin, D D and McCuddin, Z and Meyer, F and Moore, J L and Ocampo, Jr, L H and Paul, J H and Paulsen, I T and Reep, D K and Ren, Q and Ross, R L and Sato, P Y and Thomas, P and Tinkham, L E and Zerugh, G T},
abstractNote = {Presented here is the complete genome sequence of Thiomicrospira crunogena XCL-2, representative of ubiquitous chemolithoautotrophic sulfur-oxidizing bacteria isolated from deep-sea hydrothermal vents. This gammaproteobacterium has a single chromosome (2,427,734 bp), and its genome illustrates many of the adaptations that have enabled it to thrive at vents globally. It has 14 methyl-accepting chemotaxis protein genes, including four that may assist in positioning it in the redoxcline. A relative abundance of CDSs encoding regulatory proteins likely control the expression of genes encoding carboxysomes, multiple dissolved inorganic nitrogen and phosphate transporters, as well as a phosphonate operon, which provide this species with a variety of options for acquiring these substrates from the environment. T. crunogena XCL-2 is unusual among obligate sulfur oxidizing bacteria in relying on the Sox system for the oxidation of reduced sulfur compounds. A 38 kb prophage is present, and a high level of prophage induction was observed, which may play a role in keeping competing populations of close relatives in check. The genome has characteristics consistent with an obligately chemolithoautotrophic lifestyle, including few transporters predicted to have organic allocrits, and Calvin-Benson-Bassham cycle CDSs scattered throughout the genome.},
doi = {},
url = {https://www.osti.gov/biblio/907862}, journal = {PLos Biology, vol. 4, no. 12, November 14, 2006, pp. 383},
number = 12,
volume = 4,
place = {United States},
year = {Wed Jan 10 00:00:00 EST 2007},
month = {Wed Jan 10 00:00:00 EST 2007}
}