Vydianathan Ravi
A5071489765- Genomics and Phylogenetic Studies
- Ichthyology and Marine Biology
- Chromosomal and Genetic Variations
- Developmental Biology and Gene Regulation
- Animal Genetics and Reproduction
- Protist diversity and phylogeny
- Aquatic life and conservation
- Genetic Mapping and Diversity in Plants and Animals
- Genetic diversity and population structure
- Aquaculture disease management and microbiota
- Subterranean biodiversity and taxonomy
- Marine Ecology and Invasive Species
- Physiological and biochemical adaptations
- Identification and Quantification in Food
- Genomics and Chromatin Dynamics
- Parasite Biology and Host Interactions
- Aquaculture Nutrition and Growth
- Plant and Fungal Species Descriptions
- Congenital heart defects research
- Genetics and Neurodevelopmental Disorders
- Silk-based biomaterials and applications
- interferon and immune responses
- MicroRNA in disease regulation
- Fish Biology and Ecology Studies
- Fish biology, ecology, and behavior
Institute of Molecular and Cell Biology
2013-2022
Agency for Science, Technology and Research
2013-2022
University of Surrey
2020
Instituto de Ciencias Agrarias
2020
Institute of Molecular and Cell Biology
2018
University of Delhi
2004-2011
The emergence of jawed vertebrates (gnathostomes) from jawless was accompanied by major morphological and physiological innovations, such as hinged jaws, paired fins immunoglobulin-based adaptive immunity. Gnathostomes subsequently diverged into two groups, the cartilaginous fishes bony vertebrates. Here we report whole-genome analysis a fish, elephant shark (Callorhinchus milii). We find that C. milii genome is slowest evolving all known vertebrates, including 'living fossil' coelacanth,...
The discovery of a living coelacanth specimen in 1938 was remarkable, as this lineage lobe-finned fish thought to have become extinct 70 million years ago. modern looks remarkably similar many its ancient relatives, and evolutionary proximity our own ancestors provides glimpse the that first walked on land. Here we report genome sequence African coelacanth, Latimeria chalumnae. Through phylogenomic analysis, conclude lungfish, not is closest relative tetrapods. Coelacanth protein-coding...
Ingo Braasch, John Postlethwait and colleagues report the genome of spotted gar (Lepisosteus oculatus), whose lineage diverged from teleosts before duplication. Their data provide insights into evolution genes involved in immunity, mineralization development facilitate comparison cis-regulatory elements between humans. To connect human biology to fish biomedical models, we sequenced teleost duplication (TGD). The slowly evolving has conserved content size many entire chromosomes bony...
Seahorses have a specialized morphology that includes toothless tubular mouth, body covered with bony plates, male brood pouch, and the absence of caudal pelvic fins. Here we report sequencing de novo assembly genome tiger tail seahorse, Hippocampus comes. Comparative genomic analysis identifies higher protein nucleotide evolutionary rates in H. comes compared other teleost fish genomes. We identified an astacin metalloprotease gene family has undergone expansion is highly expressed pouch....
Abstract Ancient polyploidization events have had a lasting impact on vertebrate genome structure, organization and function. Some key questions regarding the number of ancient their timing in relation to cyclostome-gnathostome divergence remained contentious. Here we generate de novo long-read-based chromosome-scale assemblies for Japanese lamprey elephant shark. Using these other representative genomes developing algorithms probabilistic macrosynteny model, reconstruct high-resolution...
Significance Lampreys and hagfishes (cyclostomes) are the only living group of jawless vertebrates therefore important for study vertebrate evolution. We have characterized Hox clusters in Japanese lamprey ( Lethenteron japonicum ), shown that it contains at least six as compared with four tetrapods. This suggests lineage has undergone an additional round genome duplication Several conserved noncoding elements (CNEs) were predicted lamprey, elephant shark, human. Transgenic assay CNEs...
Rice is an important staple food and, with the smallest cereal genome, serves as a reference species for studies on evolution of cereals and other grasses. Therefore, decoding its entire genome will be prerequisite applied basic research this all cereals.We have determined analyzed complete sequences two chromosomes, 11 12, which total 55.9 Mb (14.3% length), based set overlapping clones. A 5,993 non-transposable element related genes are present these chromosomes. Among them 289 disease...
Mudskippers are amphibious fishes that have developed morphological and physiological adaptations to match their unique lifestyles. Here we perform whole-genome sequencing of four representative mudskippers elucidate the molecular mechanisms underlying these adaptations. We discover an expansion innate immune system genes in may provide defence against terrestrial pathogens. Several ammonia excretion pathway gills experienced positive selection, suggesting important roles mudskippers'...
Abstract The Asian arowana ( Scleropages formosus ), one of the world’s most expensive cultivated ornamental fishes, is an endangered species. It represents ancient lineage teleosts: Osteoglossomorpha. Here, we provide a high-quality chromosome-level reference genome female golden-variety using combination deep shotgun sequencing and high-resolution linkage mapping. In addition, have also generated two draft assemblies for red green varieties. Phylogenomic analysis supports sister group...
Abstract The evolutionary history of horseshoe crabs, spanning approximately 500 million years, is characterized by remarkable morphological stasis and a low species diversity with only four extant species. Here we report chromosome-level genome assembly for the mangrove crab ( Carcinoscorpius rotundicauda ) using PacBio reads Hi-C data. spans 1.67 Gb contig N50 7.8 Mb 98% assigned to 16 chromosomes. contains five Hox clusters 34 genes, highest number reported in any invertebrate. Detailed...
The genome of the seadragon permits lifting veil on its mysterious looks and sex-determining locus.
The predatory efficiency of squid and cuttlefish (superorder Decapodiformes) is enhanced by robust Sucker Ring Teeth (SRT) that perform grappling functions during prey capture. Here, we show SRT are composed entirely related structural “suckerin” proteins whose modular designs enable the formation nanoconfined β-sheet-reinforced polymer networks. Thirty-seven previously undiscovered suckerins were identified from transcriptomes assembled three distantly decapodiform cephalopods. Similarity...
We have sequenced and analyzed Hox gene clusters from elephant shark, a holocephalian cartilaginous fish. Elephant shark possesses 4 with 45 genes that include orthologs for higher number of ancient gnathostome than the in tetrapods supernumerary teleost fishes. Phylogenetic analysis 7 paralogous groups contain all members indicated an ((AB)(CD)) topology order cluster duplication, providing support 2R hypothesis (i.e., 2 rounds whole-genome duplication during early evolution vertebrates)....
Syngnathids (seahorses, pipefishes and seadragons) exhibit an array of morphological innovations including loss pelvic fins, a toothless tubular mouth male pregnancy. They comprise two subfamilies: Syngnathinae Nerophinae. Genomes three members have been analyzed previously. In this study, we sequenced the genome Nerophinae member, Manado pipefish (Microphis manadensis), which has semi-enclosed brood pouch. Comparative genomic analysis revealed that molecular evolutionary rate four...
Abstract Background The ocean sunfish (Mola mola), which can grow up to a length of 2.7 m and weigh 2.3 tons, is the world's largest bony fish. It has an extremely fast growth rate its endoskeleton mainly composed cartilage. Another unique feature lack caudal fin, replaced by broad stiff lobe that results in characteristic truncated appearance Results To gain insights into genomic basis these phenotypic traits, we sequenced genome performed comparative analysis with other teleost genomes....
Pax6 is a developmental control gene essential for eye development throughout the animal kingdom. In addition, plays key roles in other parts of CNS, olfactory system, and pancreas. mammals single encoding multiple isoforms delivers these pleiotropic functions. Here we provide evidence that genomes many vertebrate species contain loci. We sequenced Pax6-containing BACs from cartilaginous elephant shark (Callorhinchus milii) found two distinct Pax6.1 highly similar to mammalian Pax6, while...
Abstract Horseshoe crabs, represented by only four extant species, have existed for around 500 million years. However, their existence is now under threat because of anthropogenic activities. The availability genomic resources these species will be valuable in planning appropriate conservation measures. Whole‐genome sequences are currently available three species. In this study, we generated a chromosome‐level genome assembly the fourth Asian coastal horseshoe crab ( Tachypleus gigas ; size...
Developmental genes are regulated by complex, distantly located cis -regulatory modules (CRMs), often forming genomic regulatory blocks (GRBs) that conserved among vertebrates and insects. We have investigated GRBs associated with Iroquois homeobox in 39 metazoans. Despite 600 million years of independent evolution, linked to ankyrin-repeat-containing Sowah nearly all studied bilaterians. show -specific CRMs populate the locus, suggesting constraints underlie maintenance – syntenic block....