Study of informative DNA markers of the Rf1 gene in sunflower for breeding practice

Markin, N. V.; Усатов, А. В.; Makarenko, Maksim; Azarin, Kiril; Горбаченко, О. Ф.; Kolokolova, N. S.; Usatenko, T.V.; Markina, O. K.; Гаврилова, В. А.

doi:10.17221/108/2016-cjgpb

Cited by 11 publications

(9 citation statements)

References 14 publications

Supporting

Mentioning

Contrasting

Unclassified

Order By: Relevance

“…Two RAPD markers OPK13_454 and OPY10_740, which mapped 0.8 and 2.0 cM from Rf 1 , respectively, were converted into more reliable, easier to handle SCAR markers HRG01 and HRG02 ( Horn et al, 2003 ). A recent study of these SCAR markers for breeding practice proved that HRG01 is more efficient for Rf 1 detection in perennial species, whereas HRG02 gave better results for annual species ( Markin et al, 2017 ). In addition a multiplex TaqMan assay was established that allowed the detection of HRG01 and orfH522 at the same time ( Markin et al, 2017 ).…”

Section: Marker Development By Linkage Mappingmentioning

confidence: 99%

“…A recent study of these SCAR markers for breeding practice proved that HRG01 is more efficient for Rf 1 detection in perennial species, whereas HRG02 gave better results for annual species ( Markin et al, 2017 ). In addition a multiplex TaqMan assay was established that allowed the detection of HRG01 and orfH522 at the same time ( Markin et al, 2017 ). Using the SSR markers ORS1030, Rf 1 had been mapped to LG13 ( Kusterer et al, 2005 ) of the sunflower reference map ( Tang et al, 2003b ).…”

Section: Marker Development By Linkage Mappingmentioning

confidence: 99%

See 1 more Smart Citation

Sunflower Hybrid Breeding: From Markers to Genomic Selection

Dimitrijević

Horn

2018

Front. Plant Sci.

View full text Add to dashboard Cite

In sunflower, molecular markers for simple traits as, e.g., fertility restoration, high oleic acid content, herbicide tolerance or resistances to Plasmopara halstedii, Puccinia helianthi, or Orobanche cumana have been successfully used in marker-assisted breeding programs for years. However, agronomically important complex quantitative traits like yield, heterosis, drought tolerance, oil content or selection for disease resistance, e.g., against Sclerotinia sclerotiorum have been challenging and will require genome-wide approaches. Plant genetic resources for sunflower are being collected and conserved worldwide that represent valuable resources to study complex traits. Sunflower association panels provide the basis for genome-wide association studies, overcoming disadvantages of biparental populations. Advances in technologies and the availability of the sunflower genome sequence made novel approaches on the whole genome level possible. Genotype-by-sequencing, and whole genome sequencing based on next generation sequencing technologies facilitated the production of large amounts of SNP markers for high density maps as well as SNP arrays and allowed genome-wide association studies and genomic selection in sunflower. Genome wide or candidate gene based association studies have been performed for traits like branching, flowering time, resistance to Sclerotinia head and stalk rot. First steps in genomic selection with regard to hybrid performance and hybrid oil content have shown that genomic selection can successfully address complex quantitative traits in sunflower and will help to speed up sunflower breeding programs in the future. To make sunflower more competitive toward other oil crops higher levels of resistance against pathogens and better yield performance are required. In addition, optimizing plant architecture toward a more complex growth type for higher plant densities has the potential to considerably increase yields per hectare. Integrative approaches combining omic technologies (genomics, transcriptomics, proteomics, metabolomics and phenomics) using bioinformatic tools will facilitate the identification of target genes and markers for complex traits and will give a better insight into the mechanisms behind the traits.

show abstract

Section: Marker Development By Linkage Mappingmentioning

confidence: 99%

Section: Marker Development By Linkage Mappingmentioning

confidence: 99%

Sunflower Hybrid Breeding: From Markers to Genomic Selection

Dimitrijević

Horn

2018

Front. Plant Sci.

View full text Add to dashboard Cite

show abstract

“…These areas showed homology to clusters of BAC clones. In addition, the first region showed homology to markers as OP-K13_454 and OP-Y10_750, which have been successfully used in marker-assisted selection for the restorer gene Rf1 [9,10], and to the BAC clone 067N04, which had been successfully back mapped to Rf1 . The second area flanked by ORS1030 and OP-H13 [11] represents a small cluster of BACs with homology to the area.…”

Section: Resultsmentioning

confidence: 99%

“…Cloning and sequencing of closely linked markers (OPK13_454 and OPY10_740) allowed the development of two Sequence Tagged Site (STS) markers HRG01 and HRG02 for marker-assisted selection. Recent studies from Markin et al [10] investigating accessions present at the Vavilov Institute of Plant Genetic Resources showed that HRG01 worked very well in annual species of the genus Helianthus , while HRG02 proved to be generally applicable in perennial species. However, as the two STS markers HRG01 and HRG02 are dominant markers, their use in marker-assisted breeding is limited because heterozygous progenies cannot be distinguished from homozygous.…”

Section: Introductionmentioning

confidence: 99%

Development and Validation of Markers for the Fertility Restorer Gene Rf1 in Sunflower

Horn

Radanović

Fuhrmann

et al. 2019

IJMS

View full text Add to dashboard Cite

Hybrid breeding in sunflowers based on CMS PET1 requires development of restorer lines carrying, in most cases, the restorer gene Rf1. Markers for marker-assisted selection have been developed, but there is still need for closer, more versatile, and co-dominant markers linked to Rf1. Homology searches against the reference sunflower genome using sequences of cloned markers, as well as Bacterial Artificial Chromosome (BAC)-end sequences of clones hybridizing to them, allowed the identification of two genomic regions of 30 and 3.9 Mb, respectively, as possible physical locations of the restorer gene Rf1 on linkage group 13. Nine potential candidate genes, encoding six pentatricopeptide repeat proteins, one tetratricopeptide-like helical domain, a probable aldehyde dehydrogenase 22A1, and a probable poly(A) polymerase 3 (PAPS3), were identified in these two genomic regions. Amplicon targeted next generation sequencing of these nine candidate genes for Rf1 was performed in an association panel consisting of 27 maintainer and 32 restorer lines and revealed the presence of 210 Single Nucleotide Polymorphisms (SNPs) and 67 Insertions/Deletions (INDELs). Association studies showed significant associations of 10 SNPs with fertility restoration (p-value < 10−4), narrowing Rf1 down to three candidate genes. Three new markers, one co-dominant marker 67N04_P and two dominant markers, PPR621.5R for restorer, and PPR621.5M for maintainer lines were developed and verified in the association panel of 59 sunflower lines. The versatility of the three newly developed markers, as well as of three existing markers for the restorer gene Rf1 (HRG01 and HRG02, Cleaved Amplified Polymorphic Sequence (CAPS)-marker H13), was analyzed in a large association panel consisting of 557 accessions.

show abstract

“…On the integrated genetic map of sunflower, the genetic factor Rf1 responsible for the restoration of pollen fertility is localized in the linkage group 13 [13,14]. To identify the Rf1 gene alleles in the genotype, the closely linked molecular markers were developed [15], the diagnostic value of which was confirmed by several researchers [4,16]. However, approximately 10% of clones from the N.I.…”

Section: Introductionmentioning

confidence: 99%

Association Mapping of Fertility Restorer Gene for CMS PET1 in Sunflower

et al. 2019

View full text Add to dashboard Cite

The phenomenon of cytoplasmic male sterility (CMS), consisting in the inability to produce functional pollen due to mutations in mitochondrial genome, has been described in more than 150 plant species. With the discovery of nuclear fertility restorer (Rf) genes capable of suppressing the CMS phenotype, it became possible to use the CMS-Rf genetic systems as the basis for practical utilization of heterosis effect in various crops. Seed production of sunflower hybrids all over the world is based on the extensive use of the PET1 CMS combined with the Rf1 gene. At the same time, data on Rf1 localization, sequence, and molecular basis for the CMS PET1 type restoration of fertility remain unknown. Searching for candidate genes of the Rf1 gene has great fundamental and practical value. Therefore, in this study, association mapping of fertility restorer gene for CMS PET1 in sunflower was performed. The genome-wide association study (GWAS) results made it possible to isolate a segment 7.72 Mb in length on chromosome 13, in which 21 candidates for Rf1 fertility restorer gene were identified, including 20 pentatricopeptide repeat (PPR)family genes and one Probable aldehyde dehydrogenase gene. The results will serve as a basis for further study of the genetic nature and molecular mechanisms of pollen fertility restoration in sunflower, as well as for further intensification of sunflower breeding.

show abstract

Study of informative DNA markers of the Rf1 gene in sunflower for breeding practice

Cited by 11 publications

References 14 publications

Sunflower Hybrid Breeding: From Markers to Genomic Selection

Sunflower Hybrid Breeding: From Markers to Genomic Selection

Development and Validation of Markers for the Fertility Restorer Gene Rf1 in Sunflower

Association Mapping of Fertility Restorer Gene for CMS PET1 in Sunflower

Contact Info

Product

Resources

About