RAPD and ISSR-assisted identification and development of three new SCAR markers specific for the Thinopyrum elongatum E (Poaceae) genome

Gao-jian, XU; Su, W.; Shu, Yongjun; Cong, Wenwen; Wu, Liren; Guo, Chang Hong

doi:10.4238/2012.june.29.7

Cited by 18 publications

(9 citation statements)

References 24 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…In the last decade several molecular markers were established for Th . elongatum , such as SSR markers [28], EST-SSR markers [29,30], RAPD- and ISSR-based SCAR markers [31] and CAPS markers [32]. Specific length amplified fragment sequencing (SLAF) markers are also available, especially for the 7E chromosome [33].…”

Section: Introductionmentioning

confidence: 99%

Identification of COS markers specific for Thinopyrum elongatum chromosomes preliminary revealed high level of macrosyntenic relationship between the wheat and Th. elongatum genomes

et al. 2018

View full text Add to dashboard Cite

Thinopyrum elongatum (Host) D.R. Dewey has served as an important gene source for wheat breeding improvement for many years. The exact characterization of its chromosomes is important for the detailed analysis of prebreeding materials produced with this species. The major aim of this study was to identify and characterize new molecular markers to be used for the rapid analysis of E genome chromatin in wheat background. Sixty of the 169 conserved orthologous set (COS) markers tested on diverse wheat-Th. elongatum disomic/ditelosomic addition lines were assigned to various Th. elongatum chromosomes and will be used for marker-assisted selection. The macrosyntenic relationship between the wheat and Th. elongatum genomes was investigated using EST sequences. Several rearrangements were revealed in homoeologous chromosome groups 2, 5, 6 and 7, while chromosomes 1 and 4 were conserved. Molecular cytogenetic and marker analysis showed the presence of rearranged chromosome involved in 6ES and 2EL arms in the 6E disomic addition line. The selected chromosome arm-specific COS markers will make it possible to identify gene introgressions in breeding programmes and will also be useful in the development of new chromosome-specific markers, evolutionary analysis and gene mapping.

show abstract

Section: Introductionmentioning

confidence: 99%

Identification of COS markers specific for Thinopyrum elongatum chromosomes preliminary revealed high level of macrosyntenic relationship between the wheat and Th. elongatum genomes

et al. 2018

View full text Add to dashboard Cite

show abstract

“…SCAR markers have been also developed for breeding programs of crops like Rice [ 81 ], Citrus tristeza [ 82 ], Brassica napus L. [ 83 ], Grapevine [ 84 ], Wheat [ 85 ], Buckwheat [ 86 ], Grape [ 87 ], Barley [ 88 ], Atractylodes japonica and A. macrocephala [ 89 ], Diplocarpon rosae [ 90 ], Puccinia coronata [ 91 ], Puccinia striiformis [ 92 ], Thinopyrum elongatum [ 93 ], Liriope and Ophiopogon [ 94 ], Medicago sativa [ 95 ], Triticum turgidum [ 96 ], and Miscanthus sacchariflorus [ 97 ].…”

Section: Discussionmentioning

confidence: 99%

SCAR Marker for Identification and Discrimination of Commiphora wightii and C. myrrha

Sairkar

Sharma

Shukla

2016

Molecular Biology International

View full text Add to dashboard Cite

Commercially important Commiphora species are drought-tolerant plants and they are leafless for most of the year. Therefore, it is necessary to develop some molecular marker for the identification. Intended for that, in the present study, species-specific, sequence-characterized amplified regions (SCAR) markers were developed for proficient and precise identification of closely related species Commiphora wightii and C. myrrha, which may ensure the quality, safety, and efficacy of medicines made from these plants through adulterous mixing of these plants. Two species-specific RAPD amplicons were selected, gel-purified, cloned, and sequenced after screening of 20 RAPD primers. The sequence of 979 and 590 nucleotides (Genebank accession numbers K90051 and K90052) was used for development of 4 SCAR markers, namely, Sc1P, Sc1Pm, Sc2P, and Sc2Pm. Out of them, the Sc1Pm was specific for C. wightii, while Sc2P discriminated both the Commiphora species. These markers are first reported and will be useful for rapid identification of closely related Commiphora wightii and C. myrrha species.

show abstract

“…However, a paucity of sequence information of the E genome would preclude this as a method of developing E genome specific markers. Various marker systems have been employed to develop E genome specific markers including random amplified polymorphism DNA (RAPD) (Wei and Wang, 1995; Liu et al, 1998; You et al, 2002; Xu et al, 2012), restriction fragment length polymorphisms (RFLP) (Liu et al, 1999), resistance gene analog polymorphisms (RGAP) (Chen et al, 2007), simple sequence repeat (SSR) (Shen and Ohm, 2007), cleaved amplified polymorphic sequences (CAPS) (Li et al, 2007), amplified fragment length polymorphisms (AFLP) (Zhang et al, 2008), target region amplification polymorphisms (TRAP) (Jauhar et al, 2009), and suppression subtractive hybridization (SSH) (Ge et al, 2012). These findings indicate that there is a high degree of homology between the genomes of wheat and Th.…”

mentioning

confidence: 99%

Development of E‐chromosome Specific Molecular Markers for Thinopyrum elongatum in a Wheat Background

et al. 2015

View full text Add to dashboard Cite

Eleven primers were synthesized according to the reverse transcriptase and long terminal repeat (LTR) conserved regions of retrotransposons BARE‐1 from barley (Hordeum vulgare L.) and RIRE‐1 from rice (Oryza sativa L.). Fifty‐two pairs of primer combinations based on these 11 primers were used for DNA amplification of Chinese Spring‐Thinopyrum elongatum addition lines, substitution lines plus the two parents. It showed that 145 specific fragments of inter‐simple sequence repeat (ISSR), inter‐retrotransposon amplified polymorphism (IRAP), and retrotransposon microsatellite amplified polymorphism (REMAP) were obtained which distributed over all the seven E‐genome chromosomes of Th. elongatum. Sixty specific fragments of ISSR, IRAP, and REMAP were randomly selected for cloning and sequencing. Thirty‐four sequences were found not to be homologous with wheat (Triticum aestivum L.) sequences in GenBank, which were considered to be the specific sequences of Th. elongatum. Thirty‐four pairs of primers based on these 34 specific sequences were synthesized, and 13 chromosome‐specific markers of Th. elongatum were identified and converted into SCAR markers. The results indicated that ISSR, IRAP, and REMAP techniques can be used to develop chromosome‐specific sequence‐characterized amplified regions (SCAR) markers with good stability and repeatability. These specific SCAR markers can now be used to detect Th. elongatum chromosomes and possibly even some introgressed segments in a wheat background.

show abstract

RAPD and ISSR-assisted identification and development of three new SCAR markers specific for the Thinopyrum elongatum E (Poaceae) genome

Cited by 18 publications

References 24 publications

Identification of COS markers specific for Thinopyrum elongatum chromosomes preliminary revealed high level of macrosyntenic relationship between the wheat and Th. elongatum genomes

Identification of COS markers specific for Thinopyrum elongatum chromosomes preliminary revealed high level of macrosyntenic relationship between the wheat and Th. elongatum genomes

SCAR Marker for Identification and Discrimination of Commiphora wightii and C. myrrha

Development of E‐chromosome Specific Molecular Markers for Thinopyrum elongatum in a Wheat Background

Contact Info

Product

Resources

About