Linkage mapping in prairie cordgrass (Spartina pectinata Link) using genotyping-by-sequencing

2016 ◽  
Vol 36 (5) ◽  
Author(s):  
Joseph Crawford ◽  
Patrick J. Brown ◽  
Thomas Voigt ◽  
D. K. Lee
Keyword(s):  
Linkage Mapping ◽  
Genotyping By Sequencing ◽  
Spartina Pectinata ◽  
Prairie Cordgrass

Chloroplast DNA Intraspecific Phylogeography of Prairie Cordgrass (Spartina pectinata Bosc ex Link)

2013 ◽  
Vol 31 (6) ◽  
pp. 1376-1383 ◽  
Author(s):  
S. Kim ◽  
A. L. Rayburn ◽  
T. B. Voigt ◽  
M. L. Ainouche ◽  
A. K. Ainouche ◽  
...  
Keyword(s):  
Chloroplast Dna ◽  
Spartina Pectinata ◽  
Prairie Cordgrass ◽  
Intraspecific Phylogeography

scholarly journals QTL Mapping of Fruit and Seed-related Traits in Watermelon Using Genotyping-by-Sequencing-based High-density Linkage Mapping

2020 ◽  
Author(s):  
Meiling Gao ◽  
Xiaoxue Liang ◽  
Xiujie Liu ◽  
Yu Guo ◽  
Hongguo Xu ◽  
...  
Keyword(s):  
Qtl Mapping ◽  
Seed Size ◽  
Fruit Quality ◽  
Linkage Mapping ◽  
Genotyping By Sequencing ◽  
Fruit Shape ◽  
High Density ◽  
Chromosome 2 ◽  
Phenotypic Data ◽  
Stripe Pattern

Abstract BackgroundWatermelon is an important vegetable crop with dual use of both fruit and seeds. Understanding the genetic basis of fruit quality and seed size-related traits is important for efficient marker-assisted breeding in watermelon. Linkage mapping in watermelon segregating populations using genotyping-by-sequencing (GBS) provides insights into genetic control of fruit- and seed-related traits and genome collinearity in commercial watermelon cultivars. ResultsIn the present study, we conducted QTL mapping of 12 horticulturally important traits on external and internal fruit quality and seed size/weight using segregating populations derived a cross between two commercial varieties. A high-density genetic map was developed with GBS which contained more than 6,000 SNP loci in 1,004 bins with a total map length of 1261.1 cM and average marker interval of 1.26 cM or 329 kb. Phenotypic data of fruit rind color (RC), rind stripe pattern (RSP), flesh color (FFC), fruit diameter (FD), fruit length (FL), fruit shape index (FSI), fruit weight (FW), Brix content central (BCC), Brix content edge (BCE), seed length (SL), width (SW), and weight (20SWT) were collected from two locations in two years. QTL analysis identified 47 QTL for the 12 traits, of which 24 had moderate- or major-effects, and 34 were novel QTL not identified in previous studies. The QTL for RSP were identified overlapped with previous reports, and mapped the QTL to a small interval on chromosome 6. From the detected novel QTL, we identify FD (qfd2.1), FL (qfl2.1) co-located with FSI (qfsi2.1) QTL on chromosome 2, and the minor QTL qfw3.2 co-located with previously reported fruit shape QTL (qfd3.1, qfl3.1, qfsi3.1), and SW (qsw10.1) co-located with 20SWT QTL (q20swt10.1) on chromosome 10, and 5 minor QTL (qbcc2.1, qbcc5.1, qbce2.1, qbce2.2, qbce5.1) were found to be likely new locus for Brix content.ConclusionWe conducted GBS consisting of 120 F2 individuals and developed a high-density linkage map with more than 6,000 SNP loci in 1004 bins in watermelon. We identified 47 QTL for 12 fruit and seed related traits including 34 novel QTL. Our work expands the molecular breeding toolbox for watermelon to improve the yield and fruit quality.

Meiotic pairing as an indicator of genome composition in polyploid prairie cordgrass (Spartina pectinata Link)

Genetica ◽  
2017 ◽  
Vol 145 (2) ◽  
pp. 235-240 ◽  
Author(s):  
Jeffrey W. Bishop ◽  
Sumin Kim ◽  
María B. Villamil ◽  
D. K. Lee ◽  
A. Lane Rayburn
Keyword(s):  
Meiotic Pairing ◽  
Genome Composition ◽  
Spartina Pectinata ◽  
Prairie Cordgrass

scholarly journals Exploiting genotyping by sequencing to characterize the genomic structure of the American cranberry through high-density linkage mapping

BMC Genomics ◽  
2016 ◽  
Vol 17 (1) ◽  
Author(s):  
Giovanny Covarrubias-Pazaran ◽  
Luis Diaz-Garcia ◽  
Brandon Schlautman ◽  
Joseph Deutsch ◽  
Walter Salazar ◽  
...  
Keyword(s):  
Linkage Mapping ◽  
Genomic Structure ◽  
Genotyping By Sequencing ◽  
High Density ◽  
American Cranberry

scholarly journals Seed Reduction in Prairie Cordgrass, Spartina pectinata Link., by the Floret-Feeding Caterpillar Aethes spartinana (Barnes and McDunnough)

2011 ◽  
Vol 5 (1) ◽  
pp. 189-196 ◽  
Author(s):  
Jarrad R. Prasifka ◽  
D.K. Lee ◽  
Jeffrey D. Bradshaw ◽  
Allen S. Parrish ◽  
Michael E. Gray
Keyword(s):  
Spartina Pectinata ◽  
Prairie Cordgrass

scholarly journals Advances towards a Marker-Assisted Selection Breeding Program in Prairie Cordgrass, a Biomass Crop

2012 ◽  
Vol 2012 ◽  
pp. 1-8 ◽  
Author(s):  
K. R. Gedye ◽  
J. L. Gonzalez-Hernandez ◽  
V. Owens ◽  
A. Boe
Keyword(s):  
Marker Assisted Selection ◽  
Perennial Grass ◽  
Breeding Program ◽  
Cellulosic Biomass ◽  
Biofuel Production ◽  
Genomic Libraries ◽  
Biomass Crop ◽  
Spartina Pectinata ◽  
Prairie Cordgrass ◽  
Simple Sequence

Prairie cordgrass (Spartina pectinata Bosc ex Link) is an indigenous, perennial grass of North America that is being developed into a cellulosic biomass crop suitable for biofuel production. Limited research has been performed into the breeding of prairie cordgrass; this research details an initial investigation into the development of a breeding program for this species. Genomic libraries enriched for four simple sequence repeat (SSR) motifs were developed, 25 clones from each library were sequenced, identifying 70 SSR regions, and primers were developed for these regions, 35 of which were amplified under standard PCR conditions. These SSR markers were used to validate the crossing methodology of prairie cordgrass and it was found that crosses between two plants occurred without the need for emasculation. The successful cross between two clones of prairie cordgrass indicates that this species is not self-incompatible. The results from this research will be used to instigate the production of a molecular map of prairie cordgrass which can be used to incorporate marker-assisted selection (MAS) protocols into a breeding program to improve this species for cellulosic biomass production.

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