Allele Mining in Solanum Germplasm: Cloning and Characterization of RB-Homologous Gene Fragments from Late Blight Resistant Wild Potato Species

Tiwari, Jagesh Kumar; Devi, Sapna; Sharma, Sanjeev; Chandel, Poonam; Rawat, Shashi; Singh, B. P.

doi:10.1007/s11105-015-0859-9

Cited by 31 publications

(19 citation statements)

References 48 publications

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“…To conclude, allelic profiling of wild potato species by SSR markers, development of a dataset of alleles and diversity among the accessions of the species are important information for future application of these species. These wild species are an important resource of resistance genes for various biotic and abiotic stresses and could be characterized for more traits like late blight resistance (Tiwari et al 2015). Future study should be focused on the identification of SSR alleles linked to target traits and their deployment in future improvement programmes applying breeding and biotechnological approaches.…”

Section: Discussionmentioning

confidence: 99%

Analysis of allelic variation in wild potato (Solanum) species by simple sequence repeat (SSR) markers

et al. 2019

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Allelic variation in wild potato (Solanum) species was analysed using 14 simple sequence repeat (SSR) markers. SSR allelic profiles showed high polymorphism and distinctness among the wild species. A total of 109 alleles of 14 polymorphic SSR markers were scored in 82 accessions belonging to 22 wild potato species. Allele size ranged from a minimum of 104 bp (STI0030) to a maximum of 304 bp (STM5114). Number of SSR alleles per marker ranged from 4 (STM5127/STM1053) to 13 (STM0019), whereas PIC value varied between 0.66 (STM1053) and 0.91 (STM0019). Cluster analysis using SSR allelic profiles of 82 accessions grouped showed 5 major clusters (I-V) based on the Dice similarity coefficient using neighbourjoining clustering method. Distinct allelic variations were observed among the accessions irrespective of the origin country, series and species. Our study suggests that SSR-based molecular characterization of wild potato species is accession specific and development of an allelic dataset for all the accessions would strengthen their utilization in potato research in future.

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Section: Discussionmentioning

confidence: 99%

Analysis of allelic variation in wild potato (Solanum) species by simple sequence repeat (SSR) markers

et al. 2019

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“…Late blight caused by the oomycete Phytophthora infestans (Mont.) de Bery is the most devastating disease of potato worldwide (Tiwari et al, 2015). This work may increase our knowledge to understand molecular mechanism underlying resistance to late blight in our somatic hybrid.…”

Section: Introductionmentioning

confidence: 95%

In silico identification of candidate microRNAs and their targets in potato somatic hybrid Solanum tuberosum (+) S. pinnatisectum for late blight resistance

Singh¹,

Tiwari²,

Rawat³

et al. 2016

Plant Omics

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We employed computational tools to identify candidate miRNAs from 153 putative known genes obtained from a previous microarray experiment by Singh et al. (2016) for late blight resistance. In this study, we identified eight miRNAs families (miR395, 821, 1030, 1510, 2673, 3979, 5021 and 5213) to the nine potato genes. Mature miRNAs located at different positions of pre-miRNAs are varied from 19 to 21 nucleotides in length. Of the total 343 published miRNAs in potato (miRBase), all identified miRNAs family are new to potato crop except miR395. In particular, these novel miRNAs were identified for pathogen-induced late blight resistance mechanism in interspecific potato somatic hybrid. Majority of the predicted target genes (Table 2) of these miRNAs are involved in different biological functions, including disease resistance proteins (NBS-LRR domains) and transcription factors families. This study offers an insight to identify potential candidate miRNAs and their targets to dissect late blight resistance mechanism in potato somatic hybrid Solanum tuberosum (+) S. pinnatisectum.

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“…To mine for the Rpi genes, researchers utilize such specific technologies as PCR amplification, e.g., with the sequence characterized amplified region (SCAR) markers [ 3 , 22 , 32 , 33 , 34 ], and the resistance gene enrichment sequencing technologies [ 7 , 15 , 35 , 36 ]. An alternative approach, effectoromics, employs avirulence ( Avr ) genes of P. infestans matching the corresponding Rpi genes [ 5 ] as a tool for recognizing new Rpi genes and, what is most significant, discerning between the functional genes and their structural homologs, which may possess yet unknown functions.…”

Section: Introductionmentioning

confidence: 99%

Diversity of Late Blight Resistance Genes in the VIR Potato Collection

Рогозина

Gurina

Chalaya

et al. 2023

Plants

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Late blight (LB) caused by the oomycete Phytophthora infestans (Mont.) de Bary is the greatest threat to potato production worldwide. Current potato breeding for LB resistance heavily depends on the introduction of new genes for resistance to P. infestans (Rpi genes). Such genes have been discovered in highly diverse wild, primitive, and cultivated species of tuber-bearing potatoes (Solanum L. section Petota Dumort.) and introgressed into the elite potato cultivars by hybridization and transgenic complementation. Unfortunately, even the most resistant potato varieties have been overcome by LB due to the arrival of new pathogen strains and their rapid evolution. Therefore, novel sources for germplasm enhancement comprising the broad-spectrum Rpi genes are in high demand with breeders who aim to provide durable LB resistance. The Genbank of the N.I. Vavilov Institute of Plant Genetic Resources (VIR) in St. Petersburg harbors one of the world’s largest collections of potato and potato relatives. In this study, LB resistance was evaluated in a core selection representing 20 species of seven Petota series according to the Hawkes (1990) classification: Bulbocastana (Rydb.) Hawkes, Demissa Buk., Longipedicellata Buk., Maglia Bitt., Pinnatisecta (Rydb.) Hawkes, Tuberosa (Rydb.) Hawkes (wild and cultivated species), and Yungasensa Corr. LB resistance was assessed in 96 accessions representing 18 species in the laboratory test with detached leaves using a highly virulent and aggressive isolate of P. infestans. The Petota species notably differed in their LB resistance: S. bulbocastanum Dun., S. demissum Lindl., S. cardiophyllum Lindl., and S. berthaultii Hawkes stood out at a high frequency of resistant accessions (7–9 points on a 9-point scale). Well-established specific SCAR markers of ten Rpi genes—Rpi-R1, Rpi-R2/Rpi-blb3, Rpi-R3a, Rpi-R3b, Rpi-R8, Rpi-blb1/Rpi-sto1, Rpi-blb2, and Rpi-vnt1—were used to mine 117 accessions representing 20 species from seven Petota series. In particular, our evidence confirmed the diverse Rpi gene location in two American continents. The structural homologs of the Rpi-R2, Rpi-R3a, Rpi-R3b, and Rpi-R8 genes were found in the North American species other than S. demissum, the species that was the original source of these genes for early potato breeding, and in some cases, in the South American Tuberosa species. The Rpi-blb1/Rpi-sto1 orthologs from S. bulbocastanum and S. stoloniferum Schlechtd et Bché were restricted to genome B in the Mesoamerican series Bulbocastana, Pinnatisecta, and Longipedicellata. The structural homologs of the Rpi-vnt1 gene that were initially identified in the South American species S. venturii Hawkes and Hjert. were reported, for the first time, in the North American series of Petota species.

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Allele Mining in Solanum Germplasm: Cloning and Characterization of RB-Homologous Gene Fragments from Late Blight Resistant Wild Potato Species

Cited by 31 publications

References 48 publications

Analysis of allelic variation in wild potato (Solanum) species by simple sequence repeat (SSR) markers

Analysis of allelic variation in wild potato (Solanum) species by simple sequence repeat (SSR) markers

In silico identification of candidate microRNAs and their targets in potato somatic hybrid Solanum tuberosum (+) S. pinnatisectum for late blight resistance

Diversity of Late Blight Resistance Genes in the VIR Potato Collection

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