Alison Buchan
A5023494662- Microbial Community Ecology and Physiology
- Genomics and Phylogenetic Studies
- Bacteriophages and microbial interactions
- Marine and coastal ecosystems
- Protist diversity and phylogeny
- Microbial bioremediation and biosurfactants
- Plant Virus Research Studies
- Algal biology and biofuel production
- Bacterial biofilms and quorum sensing
- Microbial Fuel Cells and Bioremediation
- Respiratory viral infections research
- Environmental DNA in Biodiversity Studies
- Wastewater Treatment and Nitrogen Removal
- Vibrio bacteria research studies
- Atmospheric chemistry and aerosols
- Aquaculture disease management and microbiota
- Methane Hydrates and Related Phenomena
- Metabolomics and Mass Spectrometry Studies
- Odor and Emission Control Technologies
- Mycorrhizal Fungi and Plant Interactions
- Genetics, Bioinformatics, and Biomedical Research
- Microbial Metabolism and Applications
- Studies on Chitinases and Chitosanases
- Legume Nitrogen Fixing Symbiosis
- bioluminescence and chemiluminescence research
University of Tennessee at Knoxville
2015-2025
Centre d'Estudis Avançats de Blanes
2017-2019
Louisiana State University
2017
Knoxville College
2015
Georgia Institute of Technology
2012
University of Georgia
2000-2007
Universidad de La Laguna
2006
University of South Alabama
2006
Yale University
2004-2005
Abstract The reconstruction of bacterial and archaeal genomes from shotgun metagenomes has enabled insights into the ecology evolution environmental host-associated microbiomes. Here we applied this approach to >10,000 collected diverse habitats covering all Earth’s continents oceans, including human animal hosts, engineered environments, natural agricultural soils, capture extant microbial, metabolic functional potential. This comprehensive catalog includes 52,515 metagenome-assembled...
Since the recognition of prokaryotes as essential components oceanic food web1, bacterioplankton have been acknowledged catalysts most major biogeochemical processes in sea. Studying heterotrophic has challenging, however, clades never cultured2 or only grown to low densities sea water3,4. Here we describe genome sequence Silicibacter pomeroyi, a member marine Roseobacter clade (Fig. 1), relatives which comprise ∼10–20% coastal and mixed-layer bacterioplankton2,5,6,7. This first from any...
ABSTRACT Bacterioplankton of the marine Roseobacter clade have genomes that reflect a dynamic environment and diverse interactions with plankton. Comparative genome sequence analysis three cultured representatives suggests cellular requirements for nitrogen are largely provided by regenerated ammonium organic compounds (polyamines, allophanate, urea), while typical sources carbon include amino acids, glyoxylate, aromatic metabolites. An unexpectedly large number genes predicted to encode...
Flux of dimethylsulfide (DMS) from ocean surface waters is the predominant natural source sulfur to atmosphere and influences climate by aerosol formation. Marine bacterioplankton regulate flux converting precursor dimethylsulfoniopropionate (DMSP) either DMS or compounds that are not climatically active. Through discovery a glycine cleavage T-family protein with DMSP methyltransferase activity, marine in Roseobacter SAR11 taxa were identified as primary mediators demethylation...
Dissolved organic matter (DOM) in the oceans is one of largest pools reduced carbon on Earth, comparable size to atmospheric CO 2 reservoir. A vast number compounds are present DOM, and they play important roles all major element cycles, contribute storage ocean, support marine ecosystems, facilitate interactions between organisms. At heart DOM cycle lie molecular-level relationships individual members ocean microbiome that produce consume them. In past, these connections have eluded clear...
Metagenomes encode an enormous diversity of proteins, reflecting a multiplicity functions and activities
Three Gram-negative, rod-shaped, aerobic bacteria that were capable of degrading dimethylsulfoniopropionate (DMSP) isolated from marine waters. These isolates (DSS-3T, DSS-10 and ISMT) exhibited the ability to demethylate cleave DMSP, as well degrade other sulfur compounds related DMSP are cycled in environments. Intracellular poly-β-hydroxybutyrate inclusions, surface blebs one polar, complex flagellum rotated exclusively clockwise direction observed for DSS-3T. The outer membrane ISMT was...
ABSTRACT We analyzed gene expression in marine and freshwater bacterioplankton communities by the direct retrieval analysis of microbial transcripts. Environmental mRNA, obtained from total RNA subtractive hybridization rRNA, was reverse transcribed, amplified with random primers, cloned. Approximately 400 clones were analyzed, which ∼80% unambiguously mRNA derived. mRNAs appeared to be diverse taxonomic groups, including both Bacteria (mainly α- γ- Proteobacteria ) Archaea Euryarchaeota )....
Members of the Roseobacter lineage marine bacteria are prolific surface colonizers in coastal environments, and antimicrobial secondary metabolite production has been hypothesized to provide a competitive advantage colonizing roseobacters. Here, we report that roseobacter Phaeobacter sp. strain Y4I produces blue pigment indigoidine via nonribosomal peptide synthase (NRPS)-based biosynthetic pathway encoded by novel series genetically linked genes: igiBCDFE. A Tn5-based random mutagenesis...
Small genes (<150 nucleotides) have been systematically overlooked in phage genomes. We employ a large-scale comparative genomics approach to predict >40,000 small-gene families ∼2.3 million genome contigs. find that small genomes are approximately 3-fold more prevalent than host prokaryotic Our enriches for translated microbiomes, suggesting the identified coding. More 9,000 encode potentially secreted or transmembrane proteins, 5,000 predicted anti-CRISPR and 500 antimicrobial proteins. By...
ABSTRACT Aromatic compound degradation in six bacteria representing an ecologically important marine taxon of the α-proteobacteria was investigated. Initial screens suggested that isolates Roseobacter lineage can degrade aromatic compounds via β-ketoadipate pathway, a catabolic route has been well characterized soil microbes. Six were screened for presence protocatechuate 3,4-dioxygenase, key enzyme pathway. All capable growth on at least three eight monomers presented (anthranilate,...
ABSTRACT Both bacteria and fungi play critical roles in decomposition processes many natural environments, yet only rarely have they been studied as an integrated microbial community. Here we describe the bacterial fungal assemblages associated with two stages of Spartina alterniflora detritus a productive southeastern U.S. salt marsh. 16S rRNA genes 18S-to-28S internal transcribed spacer (ITS) regions were used to target ascomycete communities, respectively, based on DNA sequence analysis...
ABSTRACT Chitin is an abundant biopolymer whose degradation mediated primarily by bacterial chitinases. We developed a degenerate PCR primer set to amplify ∼900-bp fragment of family 18, group I chitinase genes and used it retrieve these gene fragments from environmental samples. Clone libraries presumptive were created for nine water six sediment samples 10 aquatic environments including freshwater saline lakes, estuarine sediments, the central Arctic Ocean. Putative sequences also...