ORCID Profile
0000-0001-7028-3024
Current Organisations
University of California, San Diego
,
Janssen Research and Development Spring House
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Publisher: Springer Science and Business Media LLC
Date: 20-07-2015
DOI: 10.1038/NCLIMATE2724
Publisher: Wiley
Date: 20-08-2013
DOI: 10.1111/MEC.12365
Abstract: Marine sponges are generally classified as high microbial abundance (HMA) and low microbial abundance (LMA) species. Here, 16S rRNA licon sequencing was applied to investigate the ersity, specificity and transcriptional activity of microbes associated with an LMA sponge ( Stylissa carteri ), an HMA sponge ( Xestospongia testudinaria ) and sea water collected from the central Saudi Arabia coast of the Red Sea. Altogether, 887 068 denoised sequences were obtained, of which 806 661 sequences remained after quality control. This resulted in 1477 operational taxonomic units ( OTUs ) that were assigned to 27 microbial phyla. The microbial composition of S. carteri was more similar to that of sea water than to that of X. testudinaria , which is consistent with the observation that the sequence data set of S. carteri contained many more possibly sea water sequences (~24%) than the X. testudinaria data set (~6%). The most abundant OTUs were shared between all three sources ( S. carteri , X. testudinaria , sea water), while rare OTUs were unique to any given source. Despite this high degree of overlap, each sponge species contained its own specific microbiota. The X. testudinaria ‐specific bacterial taxa were similar to those already described for this species. A set of S. carteri ‐specific bacterial taxa related to Proteobacteria and Nitrospira was identified, which are likely permanently associated with S. carteri . The transcriptional activity of sponge‐associated microorganisms correlated well with their abundance. Quantitative PCR revealed the presence of Poribacteria, representing typical sponge symbionts, in both sponge species and in sea water however, low transcriptional activity in sea water suggested that Poribacteria are not active outside the host context.
Publisher: Springer Science and Business Media LLC
Date: 26-04-2016
DOI: 10.1038/SREP25039
Abstract: PIWI-interacting RNAs (piRNAs) are responsible for maintaining the genome stability by silencing retrotransposons in germline tissues– where piRNAs were first discovered and thought to be restricted. Recently, novel functions were reported for piRNAs in germline and somatic cells. Using deep sequencing of small RNAs and CAGE of postnatal development of mouse brain, we identified piRNAs only in adult mouse brain. These piRNAs have similar sequence length as those of MILI-bound piRNAs. In addition, we predicted novel candidate regulators and putative targets of adult brain piRNAs.
Publisher: Wiley
Date: 09-07-2014
Abstract: Sponges are important components of marine benthic environments and are associated with microbial symbionts that carry out ecologically relevant functions. Stylissa carteri is an abundant, low-microbial abundance species in the Red Sea. We aimed to achieve the functional and taxonomic characterization of the most actively expressed prokaryotic genes in S. carteri. Prokaryotic mRNA was enriched from sponge total RNA, sequenced using Illumina HiSeq technology and annotated using the metagenomics Rapid Annotation using Subsystem Technology (MG-RAST) pipeline. We detected high expression of archaeal ammonia oxidation and photosynthetic carbon fixation by members of the genus Synechococcus. Functions related to stress response and membrane transporters were among the most highly expressed by S. carteri symbionts. Unexpectedly, gene functions related to methylotrophy were highly expressed by gammaproteobacterial symbionts. The presence of seawater-derived microbes is indicated by the phylogenetic proximity of organic carbon transporters to orthologues of members from the SAR11 clade. In summary, we revealed the most expressed functions of the S. carteri-associated microbial community and linked them to the dominant taxonomic members of the microbiome. This work demonstrates the applicability of metatranscriptomics to explore poorly characterized symbiotic consortia and expands our knowledge of the ecologically relevant functions carried out by coral reef sponge symbionts.
Publisher: Public Library of Science (PLoS)
Date: 07-10-2014
Publisher: Springer Science and Business Media LLC
Date: 2012
Publisher: Springer Science and Business Media LLC
Date: 29-02-2016
Publisher: Springer Science and Business Media LLC
Date: 10-10-2014
DOI: 10.1038/SREP06534
Location: United States of America
Location: Saudi Arabia
Location: United States of America
No related grants have been discovered for Loqmane Seridi.