Frontiers in Microbiology · 2020 · 43 citations · 62 references
Life SciencesMarine SciencesMicrobiologyMarine EcologyMarine MicrobiologyMicrobial EcologyAquatic Microbial EcologyCoastal MicrobiologyEnvironmental MicrobiomesMarine Microbial MetabolismMarine Microbial PhysiologyMicrobial OceanographyCoastal Microbial EcologyDetrital Organic MatterJellyfish BiologyMarine Microbial Food WebsMarine MicrobiomesMicrobial MineralizationOcean Microbiome
When jellyfish blooms decay, sinking jellyfish detrital organic matter (jelly-OM), rich in proteins and characterized by a low C : N ratio, becomes a significant source of OM for marine microorganisms. Yet, the key players and the process of microbial jelly-OM degradation and the consequences for marine ecosystems remain unclear. We simulated the scenario potentially experienced by the coastal pelagic microbiome after the decay of a bloom of the cosmopolitan Aurelia aurita s.l.. We show that about half of the jelly-OM is instantly available as dissolved organic matter and thus, exclusively and readily accessible to microbes. During a typical decay of an A. aurita bloom in the northern Adriatic Sea about 100 mg of jelly-OM L-1 becomes available, about 44 µmol L-1 as dissolved organic carbon (DOC), 13 µmol L-1 as total dissolved nitrogen, 11 µmol L-1 of total hydrolysable dissolved amino acids (THDAA) and 0.6 µmol L-1 PO43-. The labile jelly-OM was degraded within 1.5 days (> 98% of proteins, ~ 70% of THDAA, 97% of dissolved free amino acids and the entire jelly-DOC pool) by a consortium of Pseudoalteromonas, Alteromonas and Vibrio. These bacteria accounted for > 90% of all metabolically active jelly-OM degraders, exhibiting high bacterial growth efficiencies. This implies that a major fraction of the detrital jelly-OM is rapidly incorporated into biomass by opportunistic bacteria. Microbial processing of jelly-OM resulted in the accumulation of tryptophan, dissolved combined amino acids and inorganic nutrients, with possible implications for biogeochemical cycles.
62
Fast and accurate short read alignment with Burrows–Wheeler transform
Heng Li, Richard Durbin · Bioinformatics · 2009 · 62.8K citations · Full text
Fast and sensitive protein alignment using DIAMOND
Benjamin Buchfink, Chao Xie, Daniel H. Huson · Nature Methods · 2014 · 15.2K citations
Prodigal: prokaryotic gene recognition and translation initiation site identification
Doug Hyatt, Gwo-Liang Chen, Philip LoCascio et al. · BMC Bioinformatics · 2010 · 13.1K citations · Full text