Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1257289 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR33389131_1.fastq.gz | Fastqsanger.gz | |||
| SRR33389131_2.fastq.gz | Fastqsanger.gz | |||
| SRR33389132_1.fastq.gz | Fastqsanger.gz | |||
| SRR33389132_2.fastq.gz | Fastqsanger.gz | |||
| SRR33389133_1.fastq.gz | Fastqsanger.gz |
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Project description:Seminal fluid proteins (Sfps) can have significant effects on female behaviour and physiology. In Drosophila melanogaster a single Sfp, sex peptide (SP), triggers a remarkably diverse array of fundamentally important responses. It increases female fecundity, juvenile hormone (JH) production, antimicrobial peptide production and feeding rates, whilst decreasing sexual receptivity. Although these features are expected to leave a strong genomic signature, previous studies indicated that Sfps affect the expression of relatively modest numbers of genes. A potential explanation is that increased resolution is needed or that SP could also elicit post-transcriptional control at the level of microRNAs (miRs). We hypothesised that responses to SP at both the transcriptional and post-transcriptional levels could provide precise temporal and spatial responsiveness and facilitate the expression of diverse phenotypes from a single ligand. To test this idea, we used microarrays and Solexa deep sequencing to profile mRNA and miR responses to SP in adult female abdomen (Abd) and head+thorax (HT) tissues. SP elicited a rich but subtle signature of temporally and spatially controlled mRNAs related to functions that match the predicted known effects of SP, but that also suggest potentially novel roles for SP such as in phototransduction. mRNA profiles were much more varied in the HT than in the Abd, both within and across time points (3 and 6h after mating). The deep sequencing data revealed post-transcriptional control of SP responses by differential expression of miRs in adults. As for the mRNA profiles, there was evidence for tissue specificity. miRs showing largest expression differences tended to be down regulated in the HT and up regulated in the Abd. Receipt of SP significantly down-regulated the expression of miR279, a micro-RNA with potentially diverse sensory and reproductive roles, across the HT and Abd. We also identified potential differential expression for miRs 31A, 184, 276A and 989. Our study provides the first evidence of changes in both transcriptional and post-transcriptional expression in adults in response to Sfps, and provides a potential mechanism for the extraordinary diversity of responses seen in response to the single SP stimulus.
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Project description:Strain SM1988T is a Gram-negative, aerobic, oxidase- and catalase-positive, unipolar flagellated, and rod-shaped bacterium capable of hydrolyzing casein, gelatin and collagens. Phylogenetic analysis revealed that strain SM1988T formed a distinct phylogenetic lineage along with known genera within the family Pseudoalteromonadaceae, with 16S rRNA gene sequence similarity being less than 93.3% to all known species in the family. Based on the phylogenetic, genomic, chemotaxonomic and phenotypic data, strain SM1988T was considered to represent a novel species in a novel genus in the family Pseudoalteromonadaceae, for which the name Flocculibacter collagenilyticus gen. nov., sp. nov. is proposed, with the type strain being SM1988T (= MCCC 1K04279T = KCTC 72761T). Strain SM1988T showed a high production (236 U/mL) of extracellular collagenases, which had high activity against both bovine collagen and codfish collagen. Biochemical tests combined with genomic and secretomic analyses indicated that the collagenases secreted by strain SM1988T are serine proteases from the S8 family. These data suggest that strain SM1988T acts as an important player in marine collagen degradation and recycling and may have a promising potential in collagen resource utilization.
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Project description:The deep marine subsurface is one of the largest unexplored biospheres on Earth, where members of the phylum Chloroflexi are abundant and globally distributed. However, the deep-sea Chloroflexi have remained elusive to cultivation, hampering a more thorough understanding of their metabolisms. In this work, we have successfully isolated a representative of the phylum Chloroflexi, designated strain ZRK33, from deep-sea cold seep sediments. Phylogenetic analyses based on 16S rRNA genes, genomes, RpoB and EF-tu proteins indicated that strain ZRK33 represents a novel class within the phylum Chloroflexi, designated Sulfochloroflexia. We present a detailed description of the phenotypic traits, complete genome sequence and central metabolisms of the novel strain ZRK33. Notably, sulfate and thiosulfate could significantly promote the growth of the new isolate, possibly through accelerating the hydrolysis and uptake of saccharides. Thus, this result reveals that strain ZRK33 may play a crucial part in sulfur cycling in the deep-sea environments. Moreover, the putative genes associated with assimilatory and dissimilatory sulfate reduction are broadly distributed in the genomes of 27 metagenome-assembled genomes (MAGs) from deep-sea cold seep and hydrothermal vents sediments. Together, we propose that the deep marine subsurface Chloroflexi play key roles in sulfur cycling for the first time. This may concomitantly suggest an unsuspected availability of sulfur-containing compounds to allow for the high abundance of Chloroflexi in the deep sea.
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