Development of a large number of SSR and InDel markers and construction of a high-density genetic map based on a RIL population of pepper (Capsicum annuum L.)

2016 ◽  
Vol 36 (7) ◽  
Author(s):  
Xiao-fen Zhang ◽  
Hong-he Sun ◽  
Yong Xu ◽  
Bin Chen ◽  
Shuan-cang Yu ◽  
...  
Keyword(s):  
Capsicum Annuum ◽  
Genetic Map ◽  
High Density ◽  
Capsicum Annuum L ◽  
Indel Markers ◽  
Ril Population

scholarly journals High-density genetic map construction and QTL mapping of first flower node in pepper (Capsicum annuum L.)

2019 ◽  
Vol 19 (1) ◽  
Author(s):  
Xiao-fen Zhang ◽  
Guo-yun Wang ◽  
Ting-ting Dong ◽  
Bin Chen ◽  
He-shan Du ◽  
...  
Keyword(s):  
Qtl Mapping ◽  
Capsicum Annuum ◽  
Genetic Map ◽  
High Density ◽  
Capsicum Annuum L ◽  
Map Construction

scholarly journals Generation of a High-Density Genetic Map of Pepper (Capsicum annuum L.) by SLAF-seq and QTL Analysis of Phytophthora capsici Resistance

Horticulturae ◽  
2021 ◽  
Vol 7 (5) ◽  
pp. 92
Author(s):  
Yi-Fei Li ◽  
Shi-Cai Zhang ◽  
Xiao-Miao Yang ◽  
Chun-Ping Wang ◽  
Qi-Zhong Huang ◽  
...  
Keyword(s):  
Candidate Genes ◽  
Capsicum Annuum ◽  
Genetic Map ◽  
Phytophthora Capsici ◽  
Female Parent ◽  
High Density ◽  
Phenotypic Variance ◽  
Capsicum Annuum L ◽  
Reverse Transcription Pcr ◽  
Mapping Panel

Pepper (Capsicum annuum L.) is an economically significant global crop and condiment. Its yield can be severely reduced by the oomycete plant pathogen, Phytophthora capsici (P. capsici). Here, a high-density genetic map was created with a mapping panel of F2 populations obtained from 150 individuals of parental lines PI201234 and 1287 and specific-locus amplified fragment sequencing (SLAF) that was then utilized to identify loci that are related to resistance to P. capsici. The sequencing depth of the genetic map was 108.74-fold for the male parent, 126.25-fold for the female parent, and 22.73-fold for the offspring. A high-resolution genetic map consisting of 5565 markers and 12 linkage groups was generated for pepper, covering 1535.69 cM and an average marker distance of 0.28 cM. One major quantitative trait locus (QTL) for the P. capsici resistance (CQPc5.1) was identified on Chr05 that explained the observed 11.758% phenotypic variance. A total of 23 candidate genes located within the QTL CQPc5.1 interval were identified, which included the candidate gene Capana05g000595 that encodes the RPP8-like protein as well as two candidate genes Capana05g000596 and Capana05g000597 that encodes a RPP13-like protein. Quantitative reverse-transcription PCR (qRT-PCR) revealed higher expression levels of Capana05g000595, Capana05g000596, and Capana05g000597 in P. capsici resistance accessions, suggesting their association with P. capsici resistance in pepper.

scholarly journals Construction of a High-Density Genetic Map from RNA-Seq Data for an Arabidopsis Bay-0 × Shahdara RIL Population

2017 ◽  
Vol 8 ◽  
Author(s):  
Elise A. R. Serin ◽  
L. B. Snoek ◽  
Harm Nijveen ◽  
Leo A. J. Willems ◽  
Jose M. Jiménez-Gómez ◽  
...  
Keyword(s):  
Genetic Map ◽  
High Density ◽  
Rna Seq ◽  
Ril Population

Construction of a high density genetic map and QTL mapping of PEG-induced drought tolerance at the early seedling stage in sesame using whole genome re-sequencing

2020 ◽  
Author(s):  
Junchao Liang ◽  
Yanying Ye ◽  
Xiaowen Yan ◽  
Tingxian Yan ◽  
Yueliang Rao ◽  
...  
Keyword(s):  
Drought Tolerance ◽  
Qtl Mapping ◽  
Genetic Map ◽  
Phenotypic Variation ◽  
Root Length ◽  
High Density ◽  
Seedling Stage ◽  
Whole Genome ◽  
Major Qtls ◽  
Ril Population

Abstract BackgroundImprovement in sesame (Sesamum indicum L.) drought tolerance at seedling stage is important for yield stability. Genetic approaches combing with conventional breeding is the most effective way to develop drought-tolerant cultivars. So far, only a few studies have been reported to reveal gene/ quantitative trait loci (QTL) controlling drought tolerance in sesame. To identify the genomic regions associated with drought tolerance, we constructed a high-density genetic map using a recombinant inbred line (RIL) population through whole genome re-sequencing (WGRS) technique. QTLs contributing to three seedling traits were identified under both non-stress and water stress conditions.ResultsThree drought tolerance related traits and their relative values (the ratio of value under stress to value under control condition), including seedling weight (SW), shoot length (SL) and root length (RL), were evaluated under control and PEG-induced osmotic conditions at seedling stage in a RIL population derived from cross of Zhushanbai (ZSB) and Jinhuangma (JHM). Significant variation and high broad sense heritability were observed for all traits except SW under stress condition in the population. With this population, a high-density linkage map with 1354 bin markers was constructed through WGRS strategy. Composite interval mapping analysis was performed for all the traits as well as their relative phenotypic data. A total of 34 QTLs were detected for these traits under both conditions and their relative values, and 13 stable QTLs associated with seven traits were revealed in two independent experiments, explaining on average, 4.95-16.26% of phenotypic variation for each QTL. Four of them contributed more than 10% of phenotypic variation. One region on chromosome 12 contained two major QTLs related to RL under osmotic condition and relative RL. Seven candidate genes underlying major QTLs for drought tolerance were identified according to gene descriptions and variations between parents.ConclusionThe current study reports the first QTL mapping of drought tolerance related traits through a RIL population and first QTL detection of root related trait (root length) in sesame. These findings will provide new genetic resources for molecular improvement of drought tolerance and candidate gene identification in sesame.

scholarly journals Phytohormone responses in pepper ( Capsicum annuum L.) leaves under a high density of aphid infestation

2020 ◽  
Vol 170 (4) ◽  
pp. 519-527
Author(s):  
Victoria Florencio‐Ortiz ◽  
Ondřej Novák ◽  
José L. Casas
Keyword(s):  
Capsicum Annuum ◽  
High Density ◽  
Aphid Infestation ◽  
Capsicum Annuum L

Fine mapping of restorer-of-fertility gene based on high-density genetic mapping and collinearity analysis in pepper (Capsicum annuum L.)

2019 ◽  
Vol 133 (3) ◽  
pp. 889-902 ◽  
Author(s):  
Jiaowen Cheng ◽  
Yijian Chen ◽  
Yafei Hu ◽  
Ziyan Zhou ◽  
Fang Hu ◽  
...  
Keyword(s):  
Genetic Mapping ◽  
Capsicum Annuum ◽  
Fine Mapping ◽  
High Density ◽  
Capsicum Annuum L ◽  
Restorer Of Fertility ◽  
Fertility Gene

scholarly journals Construction of a High Density Genetic Map and QTL Mapping of PEG-Induced Drought Tolerance at Seedling Stage in Sesame Using Whole Genome Re-Sequencing

2020 ◽  
Author(s):  
Junchao Liang ◽  
Yanying Ye ◽  
Xiaowen Yan ◽  
Tingxian Yan ◽  
Yueliang Rao ◽  
...  
Keyword(s):  
Drought Tolerance ◽  
Qtl Mapping ◽  
Genetic Map ◽  
Phenotypic Variation ◽  
Root Length ◽  
High Density ◽  
Seedling Stage ◽  
Whole Genome ◽  
Phenotypic Data ◽  
Ril Population

Abstract BackgroundImprovement in sesame (Sesamum indicum L.) drought tolerance at seedling stage is important for yield stability. Genetic approaches combing with conventional breeding is the most effective way to develop drought-tolerant cultivars. So far, very few studies have been reported to reveal gene/ quantitative trait loci (QTL) controlling drought tolerance in sesame. To identify the genomic regions associated with drought tolerance, we constructed a high-density genetic map using a recombinant inbred line (RIL) population through whole genome re-sequencing (WGRS) technique. QTLs contributing to three seedling traits were identified under both non-stress and water stress conditions.ResultsThree drought tolerance related traits and their relative values (the ratio of value under stress to value under control condition), including seedling weight (SW), shoot length (SL) and root length (RL), were evaluated under control and PEG-induced osmotic conditions at seedling stage in a RIL population derived from cross of Zhushanbai (ZSB) and Jinhuangma (JHM). Significant variation and high broad sense heritability were observed for all traits except SW under stress condition in the population. With this population, a high-density linkage map with 1354 bin markers was constructed through WGRS strategy. Composite interval mapping analysis was performed for all the traits as well as their relative phenotypic data. A total of 34 QTLs were detected for these three traits under both conditions and their relative values, and 13 stable QTLs associated with seven traits could be revealed in two independent experiments, explaining on average, 4.95-16.26% of phenotypic variation for each QTL. Four of them contributed more than 10% of phenotypic variation. Root length related QTLs were first identified in sesame. One region on chromosome 12 contained two major QTLs related to RL under osmotic condition and relative RL. ConclusionThe current study reports the first QTL mapping of drought tolerance related traits through a RIL population and first QTL detection of root related trait (root length) in sesame. These findings will provide new genetic resources for molecular improvement of drought tolerance and candidate gene identification in sesame.

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