Remnants of the Legume Ancestral Genome Preserved in Gene-Rich Regions: Insights from Lupinus angustifolius Physical, Genetic, and Comparative Mapping

Publication Overview
TitleRemnants of the Legume Ancestral Genome Preserved in Gene-Rich Regions: Insights from Lupinus angustifolius Physical, Genetic, and Comparative Mapping
AuthorsKsiążkiewicz M, Zielezinski A, Wyrwa K, Szczepaniak A, Rychel S, Karlowski W, Wolko B, Naganowska B
TypeJournal Article
Journal NamePlant molecular biology reporter
Volume33
Year2015
Page(s)84-101
CitationKsiążkiewicz M, Zielezinski A, Wyrwa K, Szczepaniak A, Rychel S, Karlowski W, Wolko B, Naganowska B. Remnants of the Legume Ancestral Genome Preserved in Gene-Rich Regions: Insights from Lupinus angustifolius Physical, Genetic, and Comparative Mapping. Plant molecular biology reporter. 2015; 33:84-101.

Abstract

The narrow-leafed lupin (Lupinus angustifolius) was recently considered as a legume reference species. Genetic resources have been developed, including a draft genome sequence, linkage maps, nuclear DNA libraries, and cytogenetic chromosome-specific landmarks. Here, we used a complex approach, involving DNA fingerprinting, sequencing, genetic mapping, and molecular cytogenetics, to localize and analyze L. angustifolius gene-rich regions (GRRs). A L. angustifolius genomic bacterial artificial chromosome (BAC) library was screened with short sequence repeat (SSR)-based probes. Selected BACs were fingerprinted and assembled into contigs. BAC-end sequence (BES) annotation allowed us to choose clones for sequencing, targeting GRRs. Additionally, BESs were aligned to the scaffolds of the genome sequence. The genetic map was supplemented with 35 BES-derived markers, distributed in 14 linkage groups and tagging 37 scaffolds. The identified GRRs had an average gene density of 19.6 genes/100 kb and physical-to-genetic distance ratios of 11 to 109 kb/cM. Physical and genetic mapping was supported by multi-BAC-fluorescence in situ hybridization (FISH), and five new linkage groups were assigned to the chromosomes. Syntenic links to the genome sequences of five legume species (Medicago truncatula, Glycine max, Lotus japonicus, Phaseolus vulgaris, and Cajanus cajan) were identified. The comparative mapping of the two largest lupin GRRs provides novel evidence for ancient duplications in all of the studied species. These regions are conserved among representatives of the main clades of Papilionoideae. Furthermore, despite the complex evolution of legumes, some segments of the nuclear genome were not substantially modified and retained their quasi-ancestral structures. Cytogenetic markers anchored in these regions constitute a platform for heterologous mapping of legume genomes.
Features
This publication contains information about 306 features:
Feature NameUniquenameType
AB809361AB809361.1biological_region
AB809360AB809360.1biological_region
AB809359AB809359.1biological_region
AB809358AB809358.1biological_region
AB809357AB809357.1biological_region
AB809356AB809356.1biological_region
AB809355AB809355.1biological_region
AB809354AB809354.1biological_region
AB809353AB809353.1biological_region
AB809352AB809352.1biological_region
AB809351AB809351.1biological_region
AB809350AB809350.1biological_region
AB809349AB809349.1biological_region
AB809348AB809348.1biological_region
AB809347AB809347.1biological_region
AB809346AB809346.1biological_region
AB809345AB809345.1biological_region
AB809344AB809344.1biological_region
AB809343AB809343.1biological_region
AB809342AB809342.1biological_region
AB809341AB809341.1biological_region
AB809340AB809340.1biological_region
AB809339AB809339.1biological_region
AB809338AB809338.1biological_region
AB809337AB809337.1biological_region

Pages

Properties
Additional details for this publication include:
Property NameValue
ISSN0735-9640
Language Abbreng
Publication ModelPrint
LanguageEnglish
Journal CountryUnited States
Journal AbbreviationPlant Mol. Biol. Rep.
Publication Date2015
Publication TypeJournal Article
pISSN0735-9640
Cross References
This publication is also available in the following databases:
DatabaseAccession
PMID: PubMedPMID:25620837