Lignocellulose degradation in isopods: new insights into the adaptation to terrestrial life
International audience
The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata
...
Background: Lichens, encompassing 20,000 known species, are symbioses between specialized fungi (mycobionts), mostly ascomycetes, and unicellular green algae or cyanobacteria (photobionts). Here we describe the first parallel genomic analysis of the mycobiont Cladonia grayi and of its green algal photobiont Asterochloris glomerata. We focus on gene...
miRkwood: a tool for the reliable identification of microRNAs in plant genomes
Background: MicroRNAs (miRNAs) play crucial roles in post-transcriptional regulation of eukaryotic gene expression and are involved in many aspects of plant development. Although several prediction tools are available for metazoan genomes, the number of tools dedicated to plants is relatively limited. Results: Here, we present miRkwood, a user-frie...
Transcriptomic analysis reveals protein homeostasis breakdown in the coral Acropora millepora during hypo-saline stress
BackgroundCoral reefs can experience salinity fluctuations due to rainfall and runoff; these events can have major impacts on the corals and lead to bleaching and mortality. On the Great Barrier Reef (GBR), low salinity events, which occur during summer seasons and can involve salinity dropping ~ 10 PSU correlate with declines in coral cover, and t...
Arctic charr brain transcriptome strongly affected by summer seasonal growth but only subtly by feed deprivation
BackgroundThe Arctic charr (Salvelinus alpinus) has a highly seasonal feeding cycle that comprises long periods of voluntary fasting and a short but intense feeding period during summer. Therefore, the charr represents an interesting species for studying appetite-regulating mechanisms in fish.ResultsIn this study, we compared the brain transcriptom...
Evolution and conservation of polycomb repressive complex 1 core components and putative associated factors in the green...
International audience
Absence of evidence is not evidence of absence: Nanopore sequencing and complete assembly of the European lobster (Homar...
International audience
Peptimapper: proteogenomics workflow for the expert annotation of eukaryotic genomes
...
Background: Accurate structural annotation of genomes is still a challenge, despite the progress made over the past decade. The prediction of gene structure remains difficult, especially for eukaryotic species, and is often erroneous and incomplete. We used a proteogenomics strategy, taking advantage of the combination of proteomics datasets and bi...
Complex and dynamic transcriptional changes allow the helminth Fasciola gigantica to adjust to its intermediate snail an...
Published in BMC Genomics
BackgroundThe tropical liver fluke, Fasciola gigantica causes fasciolosis, an important disease of humans and livestock. We characterized dynamic transcriptional changes associated with the development of the parasite in its two hosts, the snail intermediate host and the mammalian definitive host.ResultsDifferential gene transcription analysis reve...
Genomic characterization of Haemophilus influenzae: a focus on the capsule locus
...Published in BMC Genomics
BackgroundHaemophilus influenzae (Hi) can cause invasive diseases such as meningitis, pneumonia, or sepsis. Typeable Hi includes six serotypes (a through f), each expressing a unique capsular polysaccharide. The capsule, encoded by the genes within the capsule locus, is a major virulence factor of typeable Hi. Non-typeable (NTHi) does not express c...
