TY - JOUR
T1 - Similar mutation rates but different mutation spectra in moderate and extremely halophilic archaea
AU - Kucukyildirim, Sibel
AU - Ozdemirel, Huseyin Ozgur
AU - Lynch, Michael
N1 - Funding Information:
S.K.), and the Multidisciplinary University Research Initiative award W911NF-09-1-0444 from the US Army Research Office, National Institutes of Health awards R01-GM036827 and R35-GM122566-01 to M.L.
Funding Information:
This work is supported by grants from the Scientific and Technological Research Council of Turkey (117Z628 to S.K.), Hacettepe University (FHD-2017-13143 and FBB-2015-6253 to
Publisher Copyright:
© The Author(s) 2022. Published by Oxford University Press on behalf of the Genetics Society of America.
PY - 2023/3
Y1 - 2023/3
N2 - Archaea are a major part of Earth's microbiota and extremely diverse. Yet, we know very little about the process of mutation that drives such diversification. To expand beyond previous work with the moderate halophilic archaeal species Haloferax volcanii, we performed a mutation-accumulation experiment followed by whole-genome sequencing in the extremely halophilic archaeon Halobacterium salinarum. Although Hfx. volcanii and Hbt. salinarum have different salt requirements, both species have highly polyploid genomes and similar GC content. We accumulated mutations for an average of 1250 generations in 67 mutation accumulation lines of Hbt. salinarum, and revealed 84 single-base substitutions and 10 insertion-deletion mutations. The estimated base-substitution mutation rate of 3.99 × 10−10 per site per generation or 1.0 × 10−3 per genome per generation in Hbt. salinarum is similar to that reported for Hfx. volcanii (1.2 × 10−3 per genome per generation), but the genome-wide insertion-deletion rate and spectrum of mutations are somewhat dissimilar in these archaeal species. The spectra of spontaneous mutations were AT biased in both archaea, but they differed in significant ways that may be related to differences in the fidelity of DNA replication/repair mechanisms or a simple result of the different salt concentrations.
AB - Archaea are a major part of Earth's microbiota and extremely diverse. Yet, we know very little about the process of mutation that drives such diversification. To expand beyond previous work with the moderate halophilic archaeal species Haloferax volcanii, we performed a mutation-accumulation experiment followed by whole-genome sequencing in the extremely halophilic archaeon Halobacterium salinarum. Although Hfx. volcanii and Hbt. salinarum have different salt requirements, both species have highly polyploid genomes and similar GC content. We accumulated mutations for an average of 1250 generations in 67 mutation accumulation lines of Hbt. salinarum, and revealed 84 single-base substitutions and 10 insertion-deletion mutations. The estimated base-substitution mutation rate of 3.99 × 10−10 per site per generation or 1.0 × 10−3 per genome per generation in Hbt. salinarum is similar to that reported for Hfx. volcanii (1.2 × 10−3 per genome per generation), but the genome-wide insertion-deletion rate and spectrum of mutations are somewhat dissimilar in these archaeal species. The spectra of spontaneous mutations were AT biased in both archaea, but they differed in significant ways that may be related to differences in the fidelity of DNA replication/repair mechanisms or a simple result of the different salt concentrations.
KW - haloarchaea
KW - Halobacterium salinarum
KW - mutation accumulation
KW - mutation rate
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U2 - 10.1093/G3JOURNAL/JKAC303
DO - 10.1093/G3JOURNAL/JKAC303
M3 - Article
C2 - 36519377
AN - SCOPUS:85151004756
SN - 2160-1836
VL - 13
JO - G3: Genes, Genomes, Genetics
JF - G3: Genes, Genomes, Genetics
IS - 3
M1 - jkac303
ER -