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Publication Details
AFRICAN RESEARCH NEXUS
SHINING A SPOTLIGHT ON AFRICAN RESEARCH
biochemistry, genetics and molecular biology
A reference genetic map of C. clementina hort. ex Tan.; citrus evolution inferences from comparative mapping
BMC Genomics, Volume 13, No. 1, Article 593, Year 2012
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Description
Background: Most modern citrus cultivars have an interspecific origin. As a foundational step towards deciphering the interspecific genome structures, a reference whole genome sequence was produced by the International Citrus Genome Consortium from a haploid derived from Clementine mandarin. The availability of a saturated genetic map of Clementine was identified as an essential prerequisite to assist the whole genome sequence assembly. Clementine is believed to be a 'Mediterranean' mandarin × sweet orange hybrid, and sweet orange likely arose from interspecific hybridizations between mandarin and pummelo gene pools. The primary goals of the present study were to establish a Clementine reference map using codominant markers, and to perform comparative mapping of pummelo, sweet orange, and Clementine.Results: Five parental genetic maps were established from three segregating populations, which were genotyped with Single Nucleotide Polymorphism (SNP), Simple Sequence Repeats (SSR) and Insertion-Deletion (Indel) markers. An initial medium density reference map (961 markers for 1084.1 cM) of the Clementine was established by combining male and female Clementine segregation data. This Clementine map was compared with two pummelo maps and a sweet orange map. The linear order of markers was highly conserved in the different species. However, significant differences in map size were observed, which suggests a variation in the recombination rates. Skewed segregations were much higher in the male than female Clementine mapping data. The mapping data confirmed that Clementine arose from hybridization between 'Mediterranean' mandarin and sweet orange. The results identified nine recombination break points for the sweet orange gamete that contributed to the Clementine genome.Conclusions: A reference genetic map of citrus, used to facilitate the chromosome assembly of the first citrus reference genome sequence, was established. The high conservation of marker order observed at the interspecific level should allow reasonable inferences of most citrus genome sequences by mapping next-generation sequencing (NGS) data in the reference genome sequence. The genome of the haploid Clementine used to establish the citrus reference genome sequence appears to have been inherited primarily from the 'Mediterranean' mandarin. The high frequency of skewed allelic segregations in the male Clementine data underline the probable extent of deviation from Mendelian segregation for characters controlled by heterozygous loci in male parents. © 2012 Ollitrault et al.; licensee BioMed Central Ltd.
Authors & Co-Authors
Ollitrault, Patrick
France, Montpellier
Amélioration Génétique et Adaptation Des Plantes Méditerranéennes et Tropicales Agap
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Terol, Javier
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Chen, Chunxian
United States, Gainesville
University of Florida Institute of Food and Agricultural Sciences
Federici, Claire T.
United States, Riverside
University of California, Riverside
Lotfy, Samia
France, Montpellier
Amélioration Génétique et Adaptation Des Plantes Méditerranéennes et Tropicales Agap
Morocco, Rabat
Institut National de la Recherche Agronomique, Morocco
Hippolyte, Isabelle
France, Montpellier
Amélioration Génétique et Adaptation Des Plantes Méditerranéennes et Tropicales Agap
Ollitrault, Frédérique
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Bérard, Aurélie
France, Evry
Etude du Polymorphisme Des Génomes Végétaux
Chauveau, Aurélie
France, Evry
Etude du Polymorphisme Des Génomes Végétaux
Cuenca, José
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Costantino, Gilles
France, Paris
Inrae
Aka Kaçar, Yıldız
Turkey, Adana
Çukurova Üniversitesi
Mu, Lisa
United States, Riverside
University of California, Riverside
García-Lor, Andrés
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Froelicher, Yann
France, Montpellier
Amélioration Génétique et Adaptation Des Plantes Méditerranéennes et Tropicales Agap
Aleza, Pablo
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Boland, Anne
France, Gif-sur-yvette
Commissariat a L'energie Atomique et Aux Energies Alternatives
Billot, Claire
France, Montpellier
Amélioration Génétique et Adaptation Des Plantes Méditerranéennes et Tropicales Agap
Navarro, Luís
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Luro, François L.
France, Paris
Inrae
Roose, Mikeal L.
United States, Riverside
University of California, Riverside
Gmitter, Frederick G.
United States, Gainesville
University of Florida Institute of Food and Agricultural Sciences
Talon, Manuel
Spain, Moncada
Instituto Valenciano de Investigaciones Agrarias
Brunel, Dominique
France, Evry
Etude du Polymorphisme Des Génomes Végétaux
Statistics
Citations: 119
Authors: 24
Affiliations: 9
Identifiers
Doi:
10.1186/1471-2164-13-593
e-ISSN:
14712164
Research Areas
Genetics And Genomics
Participants Gender
Male
Female