A5051177527- Genomics and Phylogenetic Studies
- Microbial Community Ecology and Physiology
- Coral and Marine Ecosystems Studies
- Marine Sponges and Natural Products
- Marine Biology and Ecology Research
- Identification and Quantification in Food
- Aquaculture disease management and microbiota
- Environmental DNA in Biodiversity Studies
- Genetic diversity and population structure
- Microbial Natural Products and Biosynthesis
- Ichthyology and Marine Biology
- Methane Hydrates and Related Phenomena
- Protist diversity and phylogeny
- Marine and fisheries research
- Marine and coastal plant biology
- Marine Ecology and Invasive Species
- Marine Bivalve and Aquaculture Studies
- Gut microbiota and health
- Aquatic Ecosystems and Phytoplankton Dynamics
- Vibrio bacteria research studies
- Insect symbiosis and bacterial influences
- Marine and coastal ecosystems
- Genetics, Aging, and Longevity in Model Organisms
- Chromosomal and Genetic Variations
- Mitochondrial Function and Pathology
Universidad Nacional de la Amazonía Peruana
2025
Universidade de São Paulo
2025
Nova Southeastern University
2015-2024
San Francisco Bay Conservation and Development Commission
2024
Hartnell College
2017
University of Edinburgh
2016
National Cancer Institute
1996-2013
New York State College of Veterinary Medicine
2013
Cornell University
2013
Harbor Branch Oceanographic Institute
1998-2013
Abstract Sponges (phylum Porifera) are early-diverging metazoa renowned for establishing complex microbial symbioses. Here we present a global Porifera microbiome survey, set out to establish the ecological and evolutionary drivers of these host–microbe interactions. We show that sponges reservoir exceptional diversity major contributors total world’s oceans. Little commonality in species composition or structure is evident across phylum, although symbiont communities characterized by...
The human gut microbiome can influence health through the brain-gut-microbiome axis. Growing evidence suggests that sleep quality. Previous studies have examined deprivation and yielded conflicting results. A recent study found leads to changes in composition while a different does not lead microbiome. Accordingly, relationship between physiology remains unclear. To address this uncertainty, we used actigraphy quantify measures coupled with sampling determine how correlates various of...
November 2020 marked 2 y since the launch of Earth BioGenome Project (EBP), which aims to sequence all known eukaryotic species in a 10-y timeframe. Since then, significant progress has been made across aspects EBP roadmap, as outlined 2018 article describing project’s goals, strategies, and challenges (1). The phase ended clock started on reaching EBP’s major milestones. This Special Feature explores many facets EBP, including review progress, description scientific exemplar projects,...
Life on Earth has evolved from initial simplicity to the astounding complexity we experience today. Bacteria and archaea have largely excelled in metabolic diversification, but eukaryotes additionally display abundant morphological innovation. How these innovations come about what constraints are there origins of novelty continuing maintenance biodiversity Earth? The history life code for working parts cells systems written genome. BioGenome Project proposed that genomes all extant, named...
Consistent biosynthesis of desired secondary metabolites (SMs) from pure microbial cultures is often unreliable. In a proof-of-principle study to induce SM gene expression and production, we describe mixed “co-culturing” conditions monitoring messages via quantitative real-time PCR (qPCR). Gene model bacterial strains ( Pseudomonas aeruginosa PAO1 Roseobacter denitrificans Och114) was analyzed in solo cocultures infer the effects interspecies interactions on vitro , Two P. genes PhzH coding...
Background Demosponges are challenging for phylogenetic systematics because of their plastic and relatively simple morphologies many deep divergences between major clades. To improve understanding the relationships within Demospongiae, we sequenced analyzed seven nuclear housekeeping genes involved in a variety cellular functions from diverse group sponges. Methodology/Principal Findings We generated data each four sponge classes (i.e., Calcarea, Hexactinellida, Homoscleromorpha), but...
A global international initiative, such as the Earth BioGenome Project (EBP), requires both agreement and coordination on standards to ensure that collective effort generates rapid progress toward its goals. To this end, EBP initiated five technical committees comprising volunteer members from genomics scientific community: Sample Collection Processing, Sequencing Assembly, Annotation, Analysis, IT Informatics. The current versions of resulting documents are available website, with...
<ns3:p>We present a chromosomal-level genome assembly from an individual <ns3:italic>Tridacna gigas</ns3:italic> (the giant clam; Mollusca; Bivalvia; Veneroida; Cardiidae). The sequence is 1,175.9 megabases in span. Most of the scaffolded into 17 chromosomal pseudomolecules. mitochondrial has also been assembled and 25.34 kilobases length. Gene annotation this on Ensembl identified 18,177 protein coding genes.</ns3:p>
Differential rates of nucleotide substitution among different gene segments and between distinct evolutionary lineages is well documented mitochondrial genes likely a consequence locus-specific selective constraints that delimit mutational divergence over time. We compared sequence variation 18 homologous loci (15 coding 3 parts the control region) 10 mammalian DNA genomes which allowed us to describe patterns produce an estimation relative order divergence. The in family Felidae were...
Background Marine sponge species are of significant interest to many scientific fields including marine ecology, conservation biology, genetics, host-microbe symbiosis and pharmacology. One the most intriguing aspects "holobiont" system is unique physiology, interaction with microbes from environment development a complex commensal microbial community. However, intraspecific variability temporal stability sponge-associated bacterial symbionts remain relatively unknown. Methodology/Principal...
Abstract Coastal waters adjacent to populated southeast Florida possess different habitats (reefs, oceanic inlets, sewage outfalls) that may affect the composition of their inherent microbiomes. To determine variation according site, season, and depth, over course 1 year, we characterized bacterioplankton communities within 38 nearshore seawater samples derived from Area Environment ( FACE ) water quality survey. Six distinct coastal locales were profiled – Port Everglades Hillsboro Inlets,...
The occurrence of cyanobacterial harmful algal blooms (cyanoHABs) is related to their physical and chemical environment. However, less known about associated microbial interactions processes. In this study, cyanoHABs were analyzed as a ecosystem, using 1 year 16S rRNA sequencing 70 metagenomes collected during the bloom season from Lake Okeechobee (Florida, USA). Biogeographical patterns observed in community composition function reflected ecological zones distinct parameters that resulted...
ABSTRACT Diverse marine fish and squid form symbiotic associations with extracellular bioluminescent bacteria. These symbionts are typically free-living bacteria large genomes, but one known lineage of has undergone genomic reduction evolution host dependence. It is not why distinct evolutionary trajectories have occurred among different luminous symbionts, all lineages previously had genome sequences available. In order to better understand patterns across diverse we de novo sequenced the...
Ray-finned fishes (Actinopterygii) represent more than 50 % of extant vertebrates and are great evolutionary, ecologic economic significance, but they relatively underrepresented in 'omics studies. Increased availability transcriptome data for these species will allow researchers to better understand changes gene expression, carry out functional analyses. An international project known as the "Transcriptomes 1,000 Fishes" (Fish-T1K) has been established generate RNA-seq sequences diverse...
Some excavating sponges of the genus Cliona compete with live reef corals, often killing and bioeroding entire colonies. Important aspects affecting distribution these species, such as dispersal capability population structure, remain largely unknown. Thus, aim this study was to determine levels genetic connectivity delitrix across Greater Caribbean (Caribbean Sea, Bahamas Florida), understand current patterns possible future trends in their effects on coral reefs. Using ten species-specific...
Abstract Sponges occur across diverse marine biomes and host internal microbial communities that can provide critical ecological functions. While strong patterns of specificity have been observed consistently in sponge microbiomes, the precise relationships between hosts their symbiotic remain to be fully delineated. In current study, we investigate relative roles population genetics biogeography structuring hosted by excavating Cliona delitrix . A total 53 samples, previously used demarcate...
Oceanic diel vertical migration (DVM) constitutes the daily movement of various mesopelagic organisms migrating vertically from depth to feed in shallower waters and return deeper water during day. Accurate classification taxa that participate DVM remains non-trivial, there can be discrepancies between methods. DEEPEND consortium (www.deependconsortium.org) scientists have been characterizing diversity trophic structure pelagic communities northern Gulf Mexico (nGoM). Profiling has included...
As part of our ongoing chemical investigation biologically active metabolites from marine fungi, three new compounds, p-hydroxyphenopyrrozin (1) and diketopiperazines (3, 4), have been isolated the marine-derived fungus Chromocleista sp. In addition, gave known compound phenopyrrozin (2), four (6−9), N-acetyltryptamine (10), agathic acid (11). Another diketopiperazine (5) was separated identified as a decomposition product 3 4. The structures were determined on basis mass spectroscopy, NMR...