Functional integrated genetic linkage map based on EST-markers for a sugarcane (Saccharum spp.) commercial cross

Oliveira, Karine Miranda; Pinto, Luciana Rossini; Marconi, Thiago G.; Margarido, Gabriel Rodrigues Alves; Pastina, Maria Marta; Teixeira, Laura Helena Marcon; Figueira, Antônio; Ulian, E. C.; Garcia, Antônio Augusto Franco; Souza, Anete Pereira de

doi:10.1007/s11032-007-9082-1

Cited by 88 publications

(89 citation statements)

References 32 publications

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“…In theory, the number of linkage groups should be consistent with the number of haploid chromosomes. More linkages than theoretically expected were reported in many other plants such as roses (Dugo et al, 2005), olive (la Rosa et al, 2003), lily (Abe et al, 2002), sweet potato (Kriegner et al, 2003;Oliveira et al, 2007), and pecan (Beedanagari et al, 2005). Clearly, many of these described LGs will become fused when additional markers are included.…”

Section: Discussionmentioning

confidence: 86%

Genetic linkage map of EST-SSR and SRAP markers in the endangered Chinese endemic herb Dendrobium (Orchidaceae)

Lu¹,

Wang²,

Zhao³

et al. 2012

Genet. Mol. Res.

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ABSTRACT. Dendrobium officinale is an endangered orchid from southeast Asia that is known for its medicinal properties in traditional Chinese medicine. We constructed an integrated genetic linkage map of an F 1 population derived from an interspecific cross between D. officinale and D. aduncum (both, 2n = 38), using expressed sequence tag-simple sequence repeats (EST-SSR) and sequence-related amplified polymorphism (SRAP). A total of 349 polymorphic loci, including 261 SRAP loci and 88 EST-SSR loci, were identified for genetic linkage analysis. The software JoinMap 4.0 was used to construct the genetic maps. A total of 157 loci were arranged into 27 major linkage groups, each containing a minimum of four markers, and a further 23 markers were distributed to five triplets and four doublets, the frame map covered a total distance of 1580.4 cM, with a mean of 11.89 cM between adjacent markers. This primary map of the D. officinale and D. aduncum hybrid provides a basis for genetic studies and should 4655©FUNPEC-RP www.funpecrp.com.br Genetics and Molecular Research 11 (4): 4654-4667 (2012) Genetic linkage map of Dendrobium facilitate future studies of medical traits mapping and marker-assisted selection in Dendrobium species breeding programs.

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Section: Discussionmentioning

confidence: 86%

Genetic linkage map of EST-SSR and SRAP markers in the endangered Chinese endemic herb Dendrobium (Orchidaceae)

Lu¹,

Wang²,

Zhao³

et al. 2012

Genet. Mol. Res.

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“…Validação de marcadores moleculares associados à resistência à ferrugem marrom em cana-de-açúcar. Summa Phytopathologica, v.43, n.1, p. [36][37][38][39][40]2017.…”

Section: Validação De Marcadores Moleculares Associados à Resistênciaunclassified

Validação de marcadores moleculares associados à resistência à ferrugem marrom em cana-de-açúcar

et al. 2017

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A ferrugem marrom causada pelo fungo Puccinia melanocephala é uma importante doença em cana-de-açúcar (Saccharum spp.) e está presente em praticamente todas as áreas de cultivo. Um gene de efeito maior, Bru1, foi descrito como fonte de resistência durável da cana-de-açúcar contra isolados de P. melanocephala. O objetivo deste estudo foi avaliar a eficiência de dois marcadores moleculares fortemente associados ao gene Bru1, R12H16 e 9O20-F4-RsaI, para predição da resistência genética à ferrugem marrom em variedades de cana-de-açúcar. ABSTRACTBrown rust caused by the fungus Puccinia melanocephala is an important disease affecting sugarcane (Saccharum spp.) and is present in almost all growing areas. A major effect gene, Bru1, was described as a durable resistance source in sugarcane against isolates of P. melanocephala. The aim of this study was to evaluate the efficiency of two molecular markers strongly associated with Bru1 gene, R12H16 and 9O20-F4-RsaI, for prediction of genetic resistance to brown rust in sugarcane varieties. Thus, this study included 14 RB varieties, developed by RIDESA (Interuniversity Network for the Development of the Sugarcane Industry), which were among the 10 most cultivated varieties in the central-south region of Brazil in the period of 1974-2015. To evaluate the disease in the field an experiment was conducted in randomized blocks with four replicates. The severity of Barreto, F.Z.; Balsalobre, T.W.A. Chapola, R.G.; Hoffmann, H.P.; Carneiro, M.S. Validation of molecular markers associated with brown rust resistance in sugarcane. Summa Phytopathologica, v.43, n.1, p.36-40, 2017. brown rust was quantified according to a diagrammatic scale ranging from 1 (most resistant) to 9 (most susceptible), and the obtained data were analyzed by using a generalized linear mixed model (GLMM). Concomitantly, total DNA was extracted from the 14 varieties, followed by amplification of the molecular markers, which were classified into haplotypes. Out of the total varieties, 12 had no symptoms of the disease and showed 99.35% probability of being resistant according to analysis via GLMM; among them, 91.66% were haplotype 1, i.e., had the presence of both markers associated with Bru1 gene. Therefore, we can conclude that the molecular markers R12H16 and 9O20-F4-RsaI were highly efficient in predicting resistant phenotypes and that Bru1 gene is probably the main source of sugarcane resistance to brown rust in commercial fields in Brazil.Keywords: Saccharum spp., breeding, Puccinia melanocephala, Bru1, disease resistance.A cana-de-açúcar (Saccharum spp.) está entre as mais importantes espécies cultivadas, principalmente para produção de açúcar e bioetanol (1). O Brasil é atualmente o país com a maior produção de cana-deaçúcar com mais de nove milhões de hectares cultivados e produtividade estimada em 76.909 kg ha -1 na safra 2015/16 (1, 2). A cana-de-açúcar é uma gramínea semi-perene com propagação vegetativa, sendo que os programas de melhoramento genético têm concentrado esforços para o desenvolviment...

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“…Molecular breeding scientists have successfully developed sugarcane SSRs including 221 genomic-SSRs developed by the International Sugarcane Microsatellite Consortium (ISMC) [11], 402 expressed sequence tags (EST)-derived SSRs developed by da Silva [12], 837 EST-SSRs from SUCEST by Souza's group [25] [26] [27] [28] [29], and 702 SSRs mined from both genomic and expressed sequences by the Indian Agricultural Research Institute (IARI) [30]. Some of the sugarcane SSR markers were applied to paternity analysis [31], genetic diversity assessment [32] [33] [34], genetic linkage map construction [28] [35], germplasm evaluation and variety identity testing [13] [36]. In addition, SSR technology combined with capillary electrophoresis and fluorescence detection system shows better performance in genotyping analysis due to higher accuracy and detection power [36].…”

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Genotype-Specific Microsatellite (SSR) Markers for the Sugarcane Germplasm from the Karst Region of Guizhou, China

Fu¹,

Pan²,

ChaoYun³

et al. 2016

AJPS

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Genetic variability among sugarcane genotypes from the Karst region of China was evaluated using genotype-specific microsatellite (SSR) markers. Eighteen sugarcane genotypes including 13 active cultivars and five elite QT-series clones bred locally were screened for genetic variability with 21 SSR primer pairs. All the primer pairs were highly polymorphic and amplified a total of 167 alleles with an average of eight alleles per primer pair. The average polymorphism information content (PIC) value was 0.86 with a range of 0.68 and 0.92. A UPGMA dendrogram categorized the 18 sugarcane genotypes into three major groups containing three, ten and five genotypes, respectively. No geographical affinity was observed among genotypes within the same group. Eight SSR primer pairs produced cultivar-specific alleles, of which five alleles were unique to the QT-series clones, namely, . The clone-specific SSR alleles will be useful in identifying elite QT-series clones for use in the sugarcane crossing programs in China.

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Functional integrated genetic linkage map based on EST-markers for a sugarcane (Saccharum spp.) commercial cross

Cited by 88 publications

References 32 publications

Genetic linkage map of EST-SSR and SRAP markers in the endangered Chinese endemic herb Dendrobium (Orchidaceae)

Genetic linkage map of EST-SSR and SRAP markers in the endangered Chinese endemic herb Dendrobium (Orchidaceae)

Validação de marcadores moleculares associados à resistência à ferrugem marrom em cana-de-açúcar

Genotype-Specific Microsatellite (SSR) Markers for the Sugarcane Germplasm from the Karst Region of Guizhou, China

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