| RRC ID |
34481
|
| 著者 |
Becker EA, Seitzer PM, Tritt A, Larsen D, Krusor M, Yao AI, Wu D, Madern D, Eisen JA, Darling AE, Facciotti MT.
|
| タイトル |
Phylogenetically driven sequencing of extremely halophilic archaea reveals strategies for static and dynamic osmo-response.
|
| ジャーナル |
PLoS Genet
|
| Abstract |
Organisms across the tree of life use a variety of mechanisms to respond to stress-inducing fluctuations in osmotic conditions. Cellular response mechanisms and phenotypes associated with osmoadaptation also play important roles in bacterial virulence, human health, agricultural production and many other biological systems. To improve understanding of osmoadaptive strategies, we have generated 59 high-quality draft genomes for the haloarchaea (a euryarchaeal clade whose members thrive in hypersaline environments and routinely experience drastic changes in environmental salinity) and analyzed these new genomes in combination with those from 21 previously sequenced haloarchaeal isolates. We propose a generalized model for haloarchaeal management of cytoplasmic osmolarity in response to osmotic shifts, where potassium accumulation and sodium expulsion during osmotic upshock are accomplished via secondary transport using the proton gradient as an energy source, and potassium loss during downshock is via a combination of secondary transport and non-specific ion loss through mechanosensitive channels. We also propose new mechanisms for magnesium and chloride accumulation. We describe the expansion and differentiation of haloarchaeal general transcription factor families, including two novel expansions of the TATA-binding protein family, and discuss their potential for enabling rapid adaptation to environmental fluxes. We challenge a recent high-profile proposal regarding the evolutionary origins of the haloarchaea by showing that inclusion of additional genomes significantly reduces support for a proposed large-scale horizontal gene transfer into the ancestral haloarchaeon from the bacterial domain. The combination of broad (17 genera) and deep (≥5 species in four genera) sampling of a phenotypically unified clade has enabled us to uncover both highly conserved and specialized features of osmoadaptation. Finally, we demonstrate the broad utility of such datasets, for metagenomics, improvements to automated gene annotation and investigations of evolutionary processes.
|
| 巻・号 |
10(11)
|
| ページ |
e1004784
|
| 公開日 |
2014-11-1
|
| DOI |
10.1371/journal.pgen.1004784
|
| PII |
PGENETICS-D-14-01695
|
| PMID |
25393412
|
| PMC |
PMC4230888
|
| MeSH |
Adaptation, Physiological / genetics*
Archaea / genetics*
Base Sequence
Evolution, Molecular
Genome, Archaeal
Humans
Metagenomics*
Molecular Sequence Annotation
Osmolar Concentration
Phylogeny
Salinity
TATA-Box Binding Protein / genetics*
|
| IF |
5.175
|
| 引用数 |
50
|
|
WOS 分野
|
GENETICS & HEREDITY
|
| リソース情報 |
| 一般微生物 |
JCM 9100
JCM 10118
JCM 10247
JCM 10478
JCM 10635
JCM 10717
JCM 10879
JCM 10989
JCM 10990
JCM 12255
JCM 12890
JCM 13552
JCM 13557
JCM 13560
JCM 13561
JCM 13563
JCM 13891
JCM 13916
JCM 13917
JCM 14089
JCM 14624
JCM 14663
JCM 14848
JCM 14978 |
