Genetic linkage maps of 'Pêra' sweet orange and 'Cravo' mandarin with RAPD markers

Oliveira, R. P. de; Cristofani, M; Machado, Marcos Antônio

doi:10.1590/s0100-204x2004000200009

Cited by 12 publications

(17 citation statements)

References 19 publications

(28 reference statements)

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“…However, the number of mapped markers was insufficient to establish the nine linkage groups corresponding to the nine chromosomes present in haploid citrus. Some recent studies also focused on the genetic mapping of Citrus varieties [17,20,21,33]. The map of Gulsen et al [21] was the first C. clementina map, while Bernet et al [17] mapped Chandler pummelo and Fortune mandarin, a C. clementina × C. tangerina hybrid.…”

Section: Discussionmentioning

confidence: 99%

A reference genetic map of C. clementina hort. ex Tan.; citrus evolution inferences from comparative mapping

Terol²,

et al. 2012

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BackgroundMost 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.ResultsFive 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.ConclusionsA 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.

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Section: Discussionmentioning

confidence: 99%

A reference genetic map of C. clementina hort. ex Tan.; citrus evolution inferences from comparative mapping

Terol²,

et al. 2012

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“…Harushima et al (1996) e Lyttle (1991) relataram que o desvio da proporção de segregação mendeliana esperada tem sido observado em progênies de cruzamentos intra e interespecíficos, e a causa desses desvios se encontra em fatores de distorção da segregação que afetam a competição entre os gametas ou que causam a falha do gameta ou do zigoto. Altos graus de desvios foram encontrados em vários cruzamentos, intra e interespecíficos, com o gênero Citrus, independentemente da espécie e do tipo de marcador utilizado (Oliveira et al, 2004). Tanksley et al (1992) sugeriram que rearranjos cromossômicos e seleção gamética, zigótica ou pós-zigótica podem causar desvios de segregação em várias espécies.…”

Section: Resultsunclassified

Identificação de marcadores microssatélites relacionados ao escurecimento de grãos em feijão

Couto

Santos

Ramalho

et al. 2010

Pesq. agropec. bras.

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Resumo -O objetivo deste trabalho foi identificar marcadores microssatélites ligados ao loco de características quantitativas (QTL) responsável pelo escurecimento tardio do tegumento de feijões do tipo carioca, a fim de reduzir o tempo de avaliação necessário para seleção quanto a essa característica. Foram utilizados dados de avaliação fenotípica de 185 progênies F 2:3 derivadas do cruzamento VC-3 x 'BRSMG Majestoso', para o estudo do controle genético do escurecimento dos grãos. Com esses dados, foram confeccionados dois "bulks" segregantes de DNA, empregados para a avaliação de 444 pares de primers SSR. Os aplicativos computacionais GQMOL e Sisvar foram utilizados para avaliar as segregações, confeccionar um grupo de ligação e realizar análises de marca simples e de regressão múltipla pelo método "backward". Oito marcadores apresentaram polimorfismo nos "bulks". Seis desses marcadores foram agrupados em um grupo de ligação de 80,49 cM, e destes, três mostraram-se estreitamente ligados ao QTL responsável pelo escurecimento tardio dos grãos. O marcador PVM02TC116 cossegregou com o QTL em questão, e os marcadores PVESTBR-98 (2,00 cM) e PV176 (12,24 cM) flanqueiam essa região, o que sugere elevada eficiência para possível uso na seleção assistida.Termos para indexação: Phaseolus vulgaris, locos de características quantitativas, marcador molecular, seleção assistida, SSR. Identification of microsatellite markers associated with seed-coat darkening in common beanAbstract -The objective of this work was to indentify microsatellite markers linked to the quantitative trait loci (QTL) responsible for the late seed-coat darkening in the carioca type common bean, in order to reduce the evaluation time spent in selection for this trait. Data of seed-coat darkening of 185 F 2:3 progenies derived from the cross VC-3 x 'BRSMG Majestoso', were used. Out of these data, two segregating DNA bulks were constructed to evaluate 444 SSR primers. The applicatives GQMOL and Sisvar were used to evaluate the segregations, elaborate the linkage groups, and to perform single mark and regression analysis (backward method). Eight markers were polymorphic in the DNA bulks. Six of them were mapped in a 80.49-cM linkage group. Out of these six markers, three were very close to the QTL responsible for the late grain darkening. The PVM02TC116 marker co-segregate with that QTL, and the PVESTBR-98 (2.00 cM) and PV176 (12.24 cM) ones flank it, which indicates that high efficiency in the assisted selection is possible.

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“…The hybrids were obtained by controlled crossing, with 'Cravo' mandarin as the female parent. Data from the segregation of 123 RAPD markers from 'Pêra' sweet orange and 53 from 'Cravo' mandarin, all obtained by Oliveira et al (2004), were used for genetic analyses. These markers were heterozygous for one of the parents (Aa) and recessive homozygous (aa) for the other, based on the presence of the RAPD bands.…”

Section: Methodsmentioning

confidence: 99%

“…Once the maps of each variety were constructed, the number, size and composition of the linkage groups, the length of the maps, the linear order and the distances among the markers were compared to the results obtained by Oliveira et al (2004). These authors used all markers to construct maps of Citrus, regardless of the absence or presence of skewed segregation.…”

Section: Methodsmentioning

confidence: 99%

“…Several studies have described the mapping of Citrus in order to identify genes and/or quantitative trait loci (QTL) for traits such as resistance/susceptibility to mineral salts and cold (Cai et al, 1994;Moore et al, 2000), tristeza virus (Mestre et al, 1997;Cristofani et al, 1999) and citrus variegated chlorosis (CVC) (Oliveira et al, 2004), dormancy, juvenile characters and vigor , plant height and fruit acidity (Gmitter Jr. et al, 1996).…”

Section: Introductionmentioning

confidence: 99%

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Skewed RAPD markers in linkage maps of Citrus

Oliveira

Aguilar-Vildoso²,

Cristofani

et al. 2004

Genet. Mol. Biol.

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The objective of this work was to analyze the effects of RAPD markers with skewed segregation on genetic linkage maps. Segregation data for 123 Citrus sinensis (L.) Osbeck cv. Pêra markers and 53 C. reticulata Blanco cv. Cravo markers in F 1 progeny composed of 94 hybrids were used. Genetic linkage maps of the two varieties were constructed with non-skewed markers (p < 0.05 and p < 0.01) using the program MAPMAKER 3.0 and a pseudo-testcross strategy. The maps were compared to those constructed with all markers. Alterations in the genetic distances were observed based on the location of the skewed markers within the linkage groups. Generally, the skewed markers were located at the end of the linkage groups, sometimes forming entire linkage groups, without causing significant distance modifications. However, skewed markers located between non-skewed markers caused significant distance modifications and, in some cases, altered the order of the markers. Most of the skewed markers can be included in linkage maps, but in each case the degree of distance modification caused by each marker needs to be assessed.

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Genetic linkage maps of 'Pêra' sweet orange and 'Cravo' mandarin with RAPD markers

Cited by 12 publications

References 19 publications

A reference genetic map of C. clementina hort. ex Tan.; citrus evolution inferences from comparative mapping

A reference genetic map of C. clementina hort. ex Tan.; citrus evolution inferences from comparative mapping

Identificação de marcadores microssatélites relacionados ao escurecimento de grãos em feijão

Skewed RAPD markers in linkage maps of Citrus

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