Isolation and characterization of microsatellite markers from Lagerstroemia caudata (Lythraceae) and cross-amplification in other related species

Cai, Ming; Meng, Rui; Gao, Yike; Sun, Ming; Song, Ping; Wang, Xuefeng; Zhang, Qixiang

doi:10.1007/s12686-010-9197-2

Cited by 7 publications

(4 citation statements)

References 9 publications

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“…L. speciosa , native to Australia, Southern New Guinea, India, and the Philippines, is a woody plant growing 25 m high [ 33 ] which is widely cultivated as an ornamental tree in tropical and subtropical areas. L. subcostata and L. limii , native to Southern China, are mostly shrubs or small trees; they bloom earlier [ 33 ] and have been used to breed early-flowering cultivars [ 34 ].…”

Section: Discussionmentioning

confidence: 99%

Maternal Donor and Genetic Variation of Lagerstroemia indica Cultivars

Guo

Liu

et al. 2023

IJMS

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Lagerstroemia indica L. is a well-known ornamental plant with large pyramidal racemes, long flower duration, and diverse colors and cultivars. It has been cultivated for nearly 1600 years and is essential for investigating the germplasm and assessing genetic variation to support international cultivar identification and breeding programs. In this study, 20 common Lagerstroemia indica cultivars from different varietal groups and flower morphologies, as well as multiple wild relative species, were analyzed to investigate the maternal donor of Lagerstroemia indica cultivars and to discover the genetic variation and relationships among cultivars based on plastome and nuclear ribosomal DNA (nrDNA) sequences. A total of 47 single nucleotide polymorphisms (SNPs) and 24 insertion/deletions (indels) were identified in the 20 L. indica cultivars’ plastome and 25 SNPs were identified in the nrDNA. Phylogenetic analysis based on the plastome sequences showed that all the cultivars formed a clade with the species of L. indica, indicating that L. indica was the maternal donor of the cultivars. Population structure and PCA analyses supported two clades of cultivars, which exhibited significant genetic differences according to the plastome dataset. The results of the nrDNA supported that all 20 cultivars were divided into three clades and most of the cultivars had at least two genetic backgrounds and higher gene flow. Our results suggest that the plastome and nrDNA sequences can be used as molecular markers for assessing the genetic variation and relationships of L. indica cultivars.

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Section: Discussionmentioning

confidence: 99%

Maternal Donor and Genetic Variation of Lagerstroemia indica Cultivars

Guo

Liu

et al. 2023

IJMS

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“…Dwarf crape myrtle cultivars are characterized by a low plant height, a compact plant type, short internodes and abundant mini flowers, and they have been selected for Lagerstroemia breeding programs [ 25 ]. To date, significant progress has been achieved with regard to new varietal breeding [ 26 – 28 ], germplasm evaluations [ 29 ], genetic diversity analyses [ 30 , 31 ], molecular marker development [ 32 , 33 ], genetic linkage map construction [ 34 ] and transcriptome analyses [ 35 , 36 ]. However, an in-depth study has not been conducted on the genetic mechanism underlying dwarf traits.…”

Section: Introductionmentioning

confidence: 99%

Identification and Validation of SNP Markers Linked to Dwarf Traits Using SLAF-Seq Technology in Lagerstroemia

Ye¹,

Cai²,

Ju³

et al. 2016

PLoS ONE

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The genetic control of plant architecture is a promising approach to breed desirable cultivars, particularly in ornamental flowers. In this study, the F1 population (142 seedlings) derived from Lagerstroemia fauriei (non-dwarf) × L. indica ‘Pocomoke’ (dwarf) was phenotyped for six traits (plant height (PH), internode length (IL), internode number, primary lateral branch height (PLBH), secondary lateral branch height and primary branch number), and the IL and PLBH traits were positively correlated with the PH trait and considered representative indexes of PH. Fifty non-dwarf and dwarf seedlings were pooled and subjected to a specific-locus amplified fragment sequencing (SLAF-seq) method, which screened 1221 polymorphic markers. A total of 3 markers segregating between bulks were validated in the F1 population, with the M16337 and M38412 markers highly correlated with the IL trait and the M25207 marker highly correlated with the PLBH trait. These markers provide a predictability of approximately 80% using a single marker (M25207) and a predictability of 90% using marker combinations (M16337 + M25207) in the F1 population, which revealed that the IL and the PLBH traits, especially the PLBH, were the decisive elements for PH in terms of molecular regulation. Further validation was performed in the BC1 population and a set of 28 Lagerstroemia stocks using allele-specific PCR (AS-PCR) technology, and the results showed the stability and reliability of the SNP markers and the co-determination of PH by multiple genes. Our findings provide an important theoretical and practical basis for the early prediction and indirect selection of PH using the IL and the PLBH, and the detected SNPs may be useful for marker-assisted selection (MAS) in crape myrtle.

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“…The ratio of polymorphic EST-SSR markers was lower than genomic-SSRs in crape myrtle (36.4%, Cai et al, 2010;27.9%, Wang et al, 2015), which may be due to the highly conservative coding region of EST sequences . However, the mean number of alleles (Na) of 30 SSR loci (7.433) had a higher degree of polymorphism compared with the g-SSRs (5.58, Cai et al, 2010;5.58, Wang et al, 2015). The reasons can be explained by the sample numbers and the different geographic origins.…”

Section: Discussionmentioning

confidence: 99%

“…Compared with RAPD and AFLP markers, SSRs have always been preferable to others for their co-dominant inheritance, multiple alleles, stable reproducibility and high transferability (He et al, 2003;Agarwal, Shrivastava & Padh, 2008). Dating back the genetic studies in Lagerstroemia, SSRs were extensively employed in the genetic evaluation (Wang et al, 2010), characterization and identification of germplasm resources (Cai et al, 2010), gene mapping (Ye et al, 2015) and genetic linkage map construction (He et al, 2014). However, fewer than 150 SSR markers in crape myrtle have been published to date, which hinders the development of in-depth genetic investigation in crape myrtle.…”

Section: Introductionmentioning

confidence: 99%

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Supplemental Information 1: Supplemental Table S1 the Detailed Information of Lagerstroemia accessions used in Th

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Crape myrtle is an important ornamental woody plant, due to its long-lasting mid summer bloom and rich color. However, limited molecular markers on this species hinder the breeding and genetic studies. In this work, 8,652 EST-SSRs were identified from crape myrtle transcriptome data. Di-nucleotide repeats (57.1%) were the most abundant type followed by tri-, tetra-, penta-, hexa-nucleotide repeats, with the AG/CT motif occurring most frequently. Of the 1200 synthesized primer pairs, 761 EST-SSRs (63.4%) were successfully amplified and 245 EST-SSRs (20.4%) showed polymorphic. High cross-species transferabilities of these markers were observed except in L. speciosa (26.7%). The polymorphic information content (PIC) for each locus ranged from 0.210 to 0.813 with a mean of 0.589, suggesting a high level of informativeness. Using 30 polymorphic EST-SSRs, structure and cluster analyses roughly divided the 73 accessions into three major groups with some admixtures. Based on the SSR data and clustering analysis, a final core collection (20 accessions) was identified, which captured Na, Ne, I, and PIC value with a retention rate of 92.8%, 113.6%, 110.6% and 109.7%, respectively. Thus, this work contributes to the better understanding of the genetic diversity and germplasm resources conservation in Lagerstroemia species.

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Isolation and characterization of microsatellite markers from Lagerstroemia caudata (Lythraceae) and cross-amplification in other related species

Cited by 7 publications

References 9 publications

Maternal Donor and Genetic Variation of Lagerstroemia indica Cultivars

Maternal Donor and Genetic Variation of Lagerstroemia indica Cultivars

Identification and Validation of SNP Markers Linked to Dwarf Traits Using SLAF-Seq Technology in Lagerstroemia

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