May 2025· bioRxiv· Vol 657, pp. 426 - 435· 2 citations· 129 references
BiologyMedicine
TL;DR
The use of the Great Barrier Reef Microbial Genomes Database is demonstrated to identify indicator taxa that can reliably predict the effects of reef management practices, such as the establishment of marine protected zones.
Abstract
Large genome databases have markedly improved our understanding of marine microorganisms. Although these resources have focused on prokaryotes, genomes from many dominant marine lineages, such as Pelagibacter and Prochlorococcus, are conspicuously underrepresented. Here, we present the Great Barrier Reef Microbial Genomes Database (GBR-MGD) comprising 5,283 prokaryotic genomes obtained from GBR seawater samples using Nanopore sequencing, including a collection of high quality genomes of underrepresented groups. We show that standard short read assemblies miss these populations due to a combination of strain heterogeneity and low GC% sequencing bias. The GBR-MGD also comprises 20 chromosome-level picoeukaryote and 808,585 viral genomes, including a newly described clade of marine Crassvirales. We demonstrate the use of the GBR-MGD to identify indicator taxa that can reliably predict the effects of reef management practices, such as the establishment of marine protected zones.
This study provides large-scale quantitative evidence of viral infection rates in the collective prokaryoplankton community across the global surface tropical ocean through large-scale identification and quantification of the specific phages, hosts, and modes of interaction at the resolution of individual cells.
Julia M. Brown, Alaina R. Weinheimer, N. Poulton et al.· bioRxiv· 0 citations
Beyond seasonality, long-term climatic oscillations may shape microbial populations, and recurrent seasonal mutations and non-synonymous to synonymous mutation ratios from multiple genes are found, together with signatures of positive selection coinciding with El Niño events in MiCRO.
Sergio González-Motos, Lidia Montiel, Alyse A. Larkin et al.· bioRxiv· 0 citations
This dataset provides an empirical reliability–coverage trade‐off with direct consequences for the design of eDNA monitoring programmes targeting conservation‐priority taxa, and clear priorities for taxa specific reference‐database expansion.
Elisa Laiolo, Christopher A. Hempel, Balegh A. Abukabbos et al.· Environmental Microbiology· 0 citations
This atlas provides a genome-resolved resource for studying macroalgal holobiont function and microbial natural product potential and shows comparable assembly sizes and genome quality between sequencing strategies, supporting short-read-based MAG recovery from host-associated macroalgal datasets.
Wen-Fei Xian, Xiao-Feng Liu, Jia-Ying Wang et al.· Phycology· 0 citations
(English) The surface ocean harbours a vast diversity of microorganisms, including prokaryotes (bacteria and archaea), which are key drivers of global biogeochemical cycles. Understanding how these microorganisms respond to environmental variability requires linking patterns across different biological scales, from com...
It is demonstrated that environmental filtering shapes both the taxonomic and functional organization of Antarctic microbiomes and highlight polar ecosystems as reservoirs of unexplored biosynthetic diversity with potential biotechnological relevance.
William B. Medeiros, Kelly Hidalgo-Martinez, D. D. P. S. Penna et al.· World Journal of Microbiolog...· 0 citations
We use cookies to run the site and, with your consent, for analytics and to show ads.
See our Cookie Policy.
