PICRUSt2: An improved and extensible approach for metagenome inference
One major limitation of microbial community marker gene sequencing is that it does not
provide direct information on the functional composition of sampled communities. Here, we …
provide direct information on the functional composition of sampled communities. Here, we …
From defaults to databases: parameter and database choice dramatically impact the performance of metagenomic taxonomic classification tools
In metagenomic analyses of microbiomes, one of the first steps is usually the taxonomic
classification of reads by comparison to a database of previously taxonomically classified …
classification of reads by comparison to a database of previously taxonomically classified …
Metabolic roles of uncultivated bacterioplankton lineages in the northern Gulf of Mexico “dead zone”
Marine regions that have seasonal to long-term low dissolved oxygen (DO) concentrations,
sometimes called “dead zones,” are increasing in number and severity around the globe …
sometimes called “dead zones,” are increasing in number and severity around the globe …
Localized hypoxia may have caused coral reef mortality at the Flower Garden Banks
Abstract On July 25, 2016, turbid water and dead corals, sponges and other invertebrates
were discovered at the East Bank (EB) of the Flower Garden Banks (FGB) National Marine …
were discovered at the East Bank (EB) of the Flower Garden Banks (FGB) National Marine …
[HTML][HTML] Transcriptomic evidences for microbial carbon and nitrogen cycles in the deoxygenated seawaters of Bohai Sea
Eutrophication-induced water deoxygenation occurs continually in coastal oceans, and
alters community structure, metabolic processes, and the energy shunt, resulting in a major …
alters community structure, metabolic processes, and the energy shunt, resulting in a major …
Metagenomics and metatranscriptomics reveal broadly distributed, active, novel methanotrophs in the Gulf of Mexico hypoxic zone and in the marine water column
KL Howe, KW Seitz, LG Campbell… - FEMS Microbiology …, 2023 - academic.oup.com
Abstract The northern Gulf of Mexico (nGOM) hypoxic zone is a shallow water environment
where methane, a potent greenhouse gas, fluxes from sediments to bottom water and …
where methane, a potent greenhouse gas, fluxes from sediments to bottom water and …
Microbial ecology of northern Gulf of Mexico estuarine waters
Estuarine and coastal ecosystems are of high economic and ecological importance, owing
to their diverse communities and the disproportionate role they play in carbon cycling …
to their diverse communities and the disproportionate role they play in carbon cycling …
Long-term effects of duckweed cover on the performance and microbial community of a pilot-scale waste stabilization pond
Y Zhao, Q Tu, Y Yang, X Shu, W Ma, Y Fang… - Journal of Cleaner …, 2022 - Elsevier
Abstract Duckweed-based ponds (DP), as a modified type of waste stabilization ponds
(WSP) are receiving growing attention due to the sustainable production of high-quality …
(WSP) are receiving growing attention due to the sustainable production of high-quality …
Mississippi river plume enriches microbial diversity in the northern gulf of Mexico
The Mississippi River (MR) serves as the primary source of freshwater and nutrients to the
northern Gulf of Mexico (nGOM). Whether this input of freshwater also enriches microbial …
northern Gulf of Mexico (nGOM). Whether this input of freshwater also enriches microbial …
Distinct patterns of distribution, community assembly and cross-domain co-occurrence of planktonic archaea in four major estuaries of China
X Hu, Y Huang, G Gu, H Hu, H Yan, H Zhang… - Environmental …, 2023 - Springer
Background Archaea are key mediators of estuarine biogeochemical cycles, but
comprehensive studies comparing archaeal communities among multiple estuaries with …
comprehensive studies comparing archaeal communities among multiple estuaries with …