Ontology highlight
ABSTRACT:
PROVIDER: PRJNA714946 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR13980400_1.fastq.gz | Fastqsanger.gz | |||
| SRR13980400_2.fastq.gz | Fastqsanger.gz | |||
| SRR13980395_1.fastq.gz | Fastqsanger.gz | |||
| SRR13980395_2.fastq.gz | Fastqsanger.gz | |||
| SRR13980396_1.fastq.gz | Fastqsanger.gz |
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Project description:Ten populations were evolved for 6,000 generations. Five had strong selection for sporulation, imposed partially by their cultivation in sporulation-inducing medium, while the other five populations had relaxed selection for sporulation, by cultivating them in sporulation-repressing medium. Batch cultures were diluted 1:100 daily for approximately 892 days. In the five populations with relaxed selection for sporulation, sporulation ability was eventually lost. Keywords: comparative genome hybridization and transcriptome divergence
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Project description:PRDM9, a histone methyltransferase, initiates meiotic recombination by binding DNA at recombination hotspots and directing the position of DNA double-strand breaks (DSB). The DSB repair mechanism suggests that hotspots should eventually self-destruct, yet genome-wide recombination levels remain constant, a conundrum known as the hotspot paradox. To test if PRDM9 drives this evolutionary erosion, we compared activity of the Prdm9Cst allele in two Mus musculus subspecies, M.m. castaneus, in which Prdm9Cst arose, and M.m. domesticus, into which Prdm9Cst was introduced. Comparing these two strains, we find that haplotype differences at hotspots leads to qualitative and quantitative changes in PRDM9 binding and activity. Most variants affecting PRDM9Cst binding arose and were fixed in M.m castaneus, suppressing hotspot activity. Furthermore, M.m castaneus x M.m domesticus F1 hybrids exhibit novel hotspots, representing sites of historic evolutionary erosion. Together these data support a model where haplotype-specific PRDM9 binding directs biased gene conversion at hotspots, ultimately leading to hotspot erosion. Identify position of meiotic H3K4me3 from various sub-species of mice and F1 hybrids from crosses between subspecies. In addition, perform ChIP-seq analysis on the meiosis-specific methyltransferase PRDM9.
2015-01-13 | E-GEOD-60906 | biostudies-arrayexpress
Project description:Ten populations were evolved for 6,000 generations. Five had strong selection for sporulation, imposed partially by their cultivation in sporulation-inducing medium, while the other five populations had relaxed selection for sporulation, by cultivating them in sporulation-repressing medium. Batch cultures were diluted 1:100 daily for approximately 892 days. In the five populations with relaxed selection for sporulation, sporulation ability was eventually lost. Keywords: comparative genome hybridization and transcriptome divergence Genomic DNA from all ten populations, and ancestors, was isolated, labeled and hybridized to microarrays. Only one hybridization was performed for each experimental population, with evolved and ancestral DNA hybridized to the slide. RNA hybridizations were done by chosing one strain that was evolved in sporulation-repressing medium and one strain that was evolved in sporulation-inducing medium. Two biological replicates were performed, as well as a dye swap for each biological replicate. Evolved and ancestral strains were grown in identical medium and RNA was isolated at the onset of stationary phase.
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Project description:Socially exchanged fluids, such as seminal fluid and milk, are a direct means through which an organism can influence conspecifics. When orally feeding larval offspring via trophallaxis, workers of the carpenter ant Camponotus floridanus were recently shown to transfer Juvenile Hormone III (JH), a key developmental regulator, as well as paralogs of JH esterase (JHE), an enzyme that catalyzes degradation of JH. Here we combine proteomic, phylogenetic and selection analyses to investigate the evolution of this esterase subfamily. We show that members of the Camponotus JHE-like protein family have undergone multiple duplications, experienced positive selection, and changed tissue localization to become abundantly and selectively present in trophallactic fluid. The Camponotus trophallactic esterases have maintained their catalytic triads but contain a number of positively-selected amino acid changes distributed throughout the protein, which possibly reflect an adaptation to the highly acidic trophallactic fluid of formicine ants. To determine whether these esterases might regulate larval development, we fed workers with a JHE-specific pharmacological inhibitor to introduce it into the trophallactic network. This inhibitor increased the likelihood of pupation of the larvae reared by these workers, similar and complementary to supplementation with JH. Together, these findings suggest that JHE-like proteins have evolved new roles in the Camponotus genus in inter-individual regulation of larval development.
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Project description:Eusocial insects have evolved the capacity to generate adults with distinct morphological, reproductive and behavioural phenotypes from the same genome. Recent studies suggest that RNA editing might enhance the diversity of gene products at the post-transcriptional level, particularly to induce functional changes in the nervous system. Using head samples from the leaf-cutting ant Acromyrmex echinatior, we compare RNA editomes across eusocial castes, identifying ca. 11,000 RNA editing sites in gynes, large workers and small workers. Those editing sites map to 800 genes functionally enriched for neurotransmission, circadian rhythm, temperature response, RNA splicing and carboxylic acid biosynthesis. Most A. echinatior editing sites are species specific, but 8M-bM-^@M-^S23% are conserved across ant subfamilies and likely to have been important for the evolution of eusociality in ants. The level of editing varies for the same site between castes, suggesting that RNA editing might be a general mechanism that shapes caste behaviour in ants. Analysis of genome-wide RNA editing in three different female castes of the the leaf-cutting ant Acromyrmex echinatior.
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