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Differences in homologous recombination and maintenance of heteropolyploidy between Haloferax volcanii and Haloferax mediterranei

ABSTRACT: Differences in recombination between Haloferax volcanii and Haloferax mediterranei

PROVIDER: PRJEB56691 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	ERR10368640_1.fastq.gz	Fastqsanger.gz
	ERR10368640_2.fastq.gz	Fastqsanger.gz
	ERR10368641_1.fastq.gz	Fastqsanger.gz
	ERR10368641_2.fastq.gz	Fastqsanger.gz
	ERR10368642_1.fastq.gz	Fastqsanger.gz

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Checking the origin utilisation of Haloferax mediterranei H13 through high-throughput DNA sequencing

Project description:A potential origin that appears to stay dormant in its native host Haloferax volcanii lacking the main active origins becomes activated and competent for replication of the entire chromosome when integrated into the chromosome of the origin-deleted H. mediterranei. Measurement of replication dynamics (marker frequency analysis; MFA) for Haloferax mediterranei H13

2015-07-10 | E-GEOD-70592 | biostudies-arrayexpress

Checking the origin utilisation of Haloferax mediterranei H13 through high-throughput DNA sequencing

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Differences in homologous recombination and maintenance of heteropolyploidy between Haloferax volcanii and Haloferax mediterranei.

Project description:Polyploidy, the phenomenon of having more than one copy of the genome in an organism, is common among haloarchaea. While providing short-term benefits for DNA repair, polyploidy is generally regarded as an "evolutionary trap" that by the notion of the Muller's ratchet will inevitably conclude in the species' decline or even extinction due to a gradual reduction in fitness. In most reported cases of polyploidy in archaea, the genetic state of the organism is considered as homoploidy i.e. all copies of the genome are identical. Here we demonstrate that while this is indeed the prevalent genetic status in the halophilic archaeon Haloferax volcanii, its close relative H. mediterranei maintains a prolonged heteroploidy state in a nonselective environment once a second allele is introduced. Moreover, a strong genetic linkage was observed between two distant loci in H. mediterranei indicating a low rate of homologous recombination while almost no such linkage was shown in H. volcanii indicating a high rate of recombination in the latter species. We suggest that H. volcanii escapes Muller's ratchet by means of an effective chromosome-equalizing gene-conversion mechanism facilitated by highly active homologous recombination, whereas H. mediterranei must elude the ratchet via a different, yet to be elucidated mechanism.

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Evolution of genome architecture in Archaea: spontaneous generation of a new chromosome in Haloferax volcanii by homologous recombination

Project description:Eukaryotic genomes typically consist of multiple (linear) chromosomes that are replicated from multiple origins. Several hypothetical scenarios have been proposed to account for the evolution of multi-origin/multi-chromosome genomes, which are encountered in modern eukaryotes and archaea. Here we report an example of the generation of a new chromosome in the halophilic archaeon Haloferax volcanii through one of these scenarios: acquisition of new replication origins and splitting of an ancestral chromosome into two replication-competent chromosomes. The multi-origin main chromosome has split into two genome elements via homologous recombination. The newly generated elements possess all the features of bona fide chromosomes. To our knowledge, the spontaneous generation of a new chromosome in prokaryotes without horizontal gene transfer has not been reported previously.

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Project description:Transcriptional profiling of Haloferax mediterranei comparing control wild-type strain with M-NM-^TphaA1 strain, in which phaA1 gene are knockouted. M-NM-^TphaA1 strain can accumulate PHB only. Goal was to explore the PHA biosynthetic pathway and to determine their impact on primary metabolism in H. mediterranei. Total RNA from the control Haloferax mediterranei and its M-NM-^TphaA1 strain were used to generate target cDNA, and then hybridized to 8*15K Haloferax mediterranei genome array genechips, representing about 3800 genes.

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Genes differentially expressed in Haloferax mediterranei strains, DF50 and M-NM-^TdeoR2, with or without induction by fructose

Project description:Transcriptional profiling of Haloferax mediterranei DF50 and M-NM-^TdeoR2 with induction by fructose comparing with the strains without this induction. Goal was to explore the effect of induction by fructose on Haloferax mediterranei. Total RNA from the Haloferax mediterranei DF50 and M-NM-^TdeoR2 with or without induction by fructose were used to generate target cDNA, and then hybridized to Haloferax mediterranei genome array genechips, representing about 3800 genes.

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Genes differentially expressed Haloferax mediterranei strains: control wild-type strain vs M-NM-^TphaEC strain

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Genes differentially expressed in Haloferax mediterranei strains, DF50 and ΔdeoR2, with or without induction by fructose

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