ArticleBMC genomics2006
Construction of a nurse shark (Ginglymostoma cirratum) bacterial artificial chromosome (BAC) library and a preliminary genome survey.
Article in BMC genomics, 2006. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed, 28 citations in OpenAlex.
- Analysis of shark NCR3 family genes reveals primordial features of vertebrate NKp30.Immunogenetics · 2021Article
- Ancient Use of Ig Variable Domains Contributes Significantly to the TCRδ Repertoire.Journal of immunology (Baltimore, Md. : 1950) · 2019Article
- Molecular Origin of the Stability Difference in Four Shark IgNAR Constant Domains.Biophysical journal · 2019Article
- Construction of a Genomic Bacterial Artificial Chromosome (BAC) Library for the Prawn Macrobrachium rosenbergii and Initial Analysis of ZW Chromosome-Derived BAC Inserts.Marine biotechnology (New York, N.Y.) · 2019Article
- Phylotranscriptomics suggests the jawed vertebrate ancestor could generate diverse helper and regulatory T cell subsets.BMC evolutionary biology · 2018Article
- Biased Immunoglobulin Light Chain Gene Usage in the Shark.Journal of immunology (Baltimore, Md. : 1950) · 2015Article
- Global genomic diversity of Oryza sativa varieties revealed by comparative physical mapping.Genetics · 2014Article
- Construction and analysis of Siberian tiger bacterial artificial chromosome library with approximately 6.5-fold genome equivalent coverage.International journal of molecular sciences · 2014Article
- SkateBase, an elasmobranch genome project and collection of molecular resources for chondrichthyan fishes.F1000Research · 2014Article
- A BAC based physical map and genome survey of the rice false smut fungus Villosiclava virens.BMC genomics · 2013Article
- Genomic resources for gene discovery, functional genome annotation, and evolutionary studies of maize and its close relatives.Genetics · 2013Article
- Shark IgW C region diversification through RNA processing and isotype switching.Journal of immunology (Baltimore, Md. : 1950) · 2013Article
- Construction and preliminary characterization analysis of Wuzhishan miniature pig bacterial artificial chromosome library with approximately 8-fold genome equivalent coverage.BioMed research international · 2013Article
- A pair of new BAC and BIBAC vectors that facilitate BAC/BIBAC library construction and intact large genomic DNA insert exchange.Plant methods · 2011Article
- The multiple shark Ig H chain genes rearrange and hypermutate autonomously.Journal of immunology (Baltimore, Md. : 1950) · 2011Article
- The 19 genomes of Drosophila: a BAC library resource for genus-wide and genome-scale comparative evolutionary research.Genetics · 2011Article
- Primordial linkage of β2-microglobulin to the MHC.Journal of immunology (Baltimore, Md. : 1950) · 2011Article
- Elasmobranch qPCR reference genes: a case study of hypoxia preconditioned epaulette sharks.BMC molecular biology · 2010Article
- The evolution of multiple isotypic IgM heavy chain genes in the shark.Journal of immunology (Baltimore, Md. : 1950) · 2008Article
- Construction of a BAC library and mapping BAC clones to the linkage map of Barramundi, Lates calcarifer.BMC genomics · 2008Article
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Authors and funding
16 authors at 3 institutions in 3 countries.
Funding
Abstract
backgroundSharks are members of the taxonomic class Chondrichthyes, the oldest living jawed vertebrates. Genomic studies of this group, in comparison to representative species in other vertebrate taxa, will allow us to theorize about the fundamental genetic, developmental, and functional characteristics in the common ancestor of all jawed vertebrates.
aimsIn order to obtain mapping and sequencing data for comparative genomics, we constructed a bacterial artificial chromosome (BAC) library for the nurse shark, Ginglymostoma cirratum.
resultsThe BAC library consists of 313,344 clones with an average insert size of 144 kb, covering ~4.5 x 1010 bp and thus providing an 11-fold coverage of the haploid genome. BAC end sequence analyses revealed, in addition to LINEs and SINEs commonly found in other animal and plant genomes, two new groups of nurse shark-specific repetitive elements, NSRE1 and NSRE2 that seem to be major components of the nurse shark genome. Screening the library with single-copy or multi-copy gene probes showed 6-28 primary positive clones per probe of which 50-90% were true positives, demonstrating that the BAC library is representative of the different regions of the nurse shark genome. Furthermore, some BAC clones contained multiple genes, making physical mapping feasible.
conclusionWe have constructed a deep-coverage, high-quality, large insert, and publicly available BAC library for a cartilaginous fish. It will be very useful to the scientific community interested in shark genomic structure, comparative genomics, and functional studies. We found two new groups of repetitive elements specific to the nurse shark genome, which may contribute to the architecture and evolution of the nurse shark genome.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.