SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentil
Lentil (Lens culinaris Medik.) is a self-pollinating, diploid, annual, cool-season, food legume crop that is cultivated throughout the world. Ascochyta blight (AB), caused by Ascochyta lentis Vassilievsky, is an economically important and widespread disease of lentil. Development of cultivars with h...
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| Format: | Article |
| Language: | English |
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Frontiers Media S.A.
2016-11-01
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| Series: | Frontiers in Plant Science |
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| Online Access: | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.01604/full |
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| author | Shimna Sudheesh Matthew S Rodda Jenny Davidson Muhammad Javid Amber Stephens Anthony T Slater Noel Oliver Ian Cogan John White Forster Sukhjiwan Kaur |
| author_facet | Shimna Sudheesh Matthew S Rodda Jenny Davidson Muhammad Javid Amber Stephens Anthony T Slater Noel Oliver Ian Cogan John White Forster Sukhjiwan Kaur |
| author_sort | Shimna Sudheesh |
| collection | DOAJ |
| description | Lentil (Lens culinaris Medik.) is a self-pollinating, diploid, annual, cool-season, food legume crop that is cultivated throughout the world. Ascochyta blight (AB), caused by Ascochyta lentis Vassilievsky, is an economically important and widespread disease of lentil. Development of cultivars with high levels of durable resistance provides an environmentally acceptable and economically feasible method for AB control. A detailed understanding of the genetic basis of AB resistance is hence highly desirable, in order to obtain insight into the number and influence of resistance genes. Genetic linkage maps based on single nucleotide polymorphisms (SNP) and simple sequence repeat (SSR) markers have been developed from three recombinant inbred line (RIL) populations. The IH x NF map contained 460 loci across 1461.6 cM, while the IH x DIG map contained 329 loci across 1302.5 cM and the third map, NF x DIG contained 330 loci across 1914.1 cM. Data from these maps were combined with a map from a previously published study through use of bridging markers to generate a consensus linkage map containing 689 loci distributed across 7 linkage groups (LGs), with a cumulative length of 2429.61 cM at an average density of one marker per 3.5 cM. Trait dissection of AB resistance was performed for the RIL populations, identifying totals of two and three quantitative trait loci (QTLs) explaining 52% and 69% of phenotypic variation for resistance to infection in the IH x DIG and IH x NF populations, respectively. Presence of common markers in the vicinity of the AB_IH1- and AB_IH2.1/AB_IH2.2-containing regions on both maps supports the inference that a common genomic region is responsible for conferring resistance and is associated with the resistant parent, Indianhead. The third QTL was derived from Northfield. Evaluation of markers associated with AB resistance across a diverse lentil germplasm panel revealed that the identity of alleles associated with AB_IH1 predicted the phenotypic responses with high levels of accuracy (~86%), and therefore have the potential to be widely adopted in lentil breeding programs. The availability of RIL-based maps, a consensus map, and validated markers linked to AB resistance provide important resources for lentil improvement. |
| first_indexed | 2024-04-12T12:49:03Z |
| format | Article |
| id | doaj.art-21efd3ef7da949efae1d68aba0c07f37 |
| institution | Directory Open Access Journal |
| issn | 1664-462X |
| language | English |
| last_indexed | 2024-04-12T12:49:03Z |
| publishDate | 2016-11-01 |
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| series | Frontiers in Plant Science |
| spelling | doaj.art-21efd3ef7da949efae1d68aba0c07f372022-12-22T03:32:32ZengFrontiers Media S.A.Frontiers in Plant Science1664-462X2016-11-01710.3389/fpls.2016.01604223324SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentilShimna Sudheesh0Matthew S Rodda1Jenny Davidson2Muhammad Javid3Amber Stephens4Anthony T Slater5Noel Oliver Ian Cogan6John White Forster7Sukhjiwan Kaur8Biosciences Research, Agriculture Victoria, AgriBioBiosciences Research, Agriculture VictoriaSouth Australia Research and Development InstituteBiosciences Research, Agriculture VictoriaBiosciences Research, Agriculture Victoria, AgriBioBiosciences Research, Agriculture Victoria, AgriBioBiosciences Research, Agriculture Victoria, AgriBioBiosciences Research, Agriculture Victoria, AgriBioBiosciences Research, Agriculture Victoria, AgriBioLentil (Lens culinaris Medik.) is a self-pollinating, diploid, annual, cool-season, food legume crop that is cultivated throughout the world. Ascochyta blight (AB), caused by Ascochyta lentis Vassilievsky, is an economically important and widespread disease of lentil. Development of cultivars with high levels of durable resistance provides an environmentally acceptable and economically feasible method for AB control. A detailed understanding of the genetic basis of AB resistance is hence highly desirable, in order to obtain insight into the number and influence of resistance genes. Genetic linkage maps based on single nucleotide polymorphisms (SNP) and simple sequence repeat (SSR) markers have been developed from three recombinant inbred line (RIL) populations. The IH x NF map contained 460 loci across 1461.6 cM, while the IH x DIG map contained 329 loci across 1302.5 cM and the third map, NF x DIG contained 330 loci across 1914.1 cM. Data from these maps were combined with a map from a previously published study through use of bridging markers to generate a consensus linkage map containing 689 loci distributed across 7 linkage groups (LGs), with a cumulative length of 2429.61 cM at an average density of one marker per 3.5 cM. Trait dissection of AB resistance was performed for the RIL populations, identifying totals of two and three quantitative trait loci (QTLs) explaining 52% and 69% of phenotypic variation for resistance to infection in the IH x DIG and IH x NF populations, respectively. Presence of common markers in the vicinity of the AB_IH1- and AB_IH2.1/AB_IH2.2-containing regions on both maps supports the inference that a common genomic region is responsible for conferring resistance and is associated with the resistant parent, Indianhead. The third QTL was derived from Northfield. Evaluation of markers associated with AB resistance across a diverse lentil germplasm panel revealed that the identity of alleles associated with AB_IH1 predicted the phenotypic responses with high levels of accuracy (~86%), and therefore have the potential to be widely adopted in lentil breeding programs. The availability of RIL-based maps, a consensus map, and validated markers linked to AB resistance provide important resources for lentil improvement.http://journal.frontiersin.org/Journal/10.3389/fpls.2016.01604/fullPulseFungal disease resistancelegumemolecular breedingSingle nucleotide polymorphisms (SNPs) |
| spellingShingle | Shimna Sudheesh Matthew S Rodda Jenny Davidson Muhammad Javid Amber Stephens Anthony T Slater Noel Oliver Ian Cogan John White Forster Sukhjiwan Kaur SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentil Frontiers in Plant Science Pulse Fungal disease resistance legume molecular breeding Single nucleotide polymorphisms (SNPs) |
| title | SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentil |
| title_full | SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentil |
| title_fullStr | SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentil |
| title_full_unstemmed | SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentil |
| title_short | SNP-based linkage mapping for validation of QTLs for resistance to ascochyta blight in lentil |
| title_sort | snp based linkage mapping for validation of qtls for resistance to ascochyta blight in lentil |
| topic | Pulse Fungal disease resistance legume molecular breeding Single nucleotide polymorphisms (SNPs) |
| url | http://journal.frontiersin.org/Journal/10.3389/fpls.2016.01604/full |
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