An integrated SSR and RFLP linkage map of Sorghum bicolor (L.) Moench

Genome ◽  
2000 ◽  
Vol 43 (6) ◽  
pp. 988-1002 ◽  
Author(s):  
Dinakar Bhattramakki ◽  
Jianmin Dong ◽  
Ashok K Chhabra ◽  
Gary E Hart
Keyword(s):  
Sorghum Bicolor ◽  
Linkage Map ◽  
Dna Sequences ◽  
Artificial Chromosome ◽  
Polymorphic Loci ◽  
Dna Libraries ◽  
Ssr Loci ◽  
Bac Libraries ◽  
Primer Sets ◽  
Sorghum Bicolor L

We report the development, testing, and use (for genetic mapping) of a large number of polymerase chain reaction (PCR) primer sets that amplify DNA simple sequence repeat (SSR) loci of Sorghum bicolor (L.) Moench. Most of the primer sets were developed from clones isolated from two sorghum bacterial artificial chromosome (BAC) libraries and three enriched sorghum genomic-DNA (gDNA) libraries. A few were developed from sorghum DNA sequences present in public databases. The libraries were probed with radiolabeled di- and trinucleotide oligomers, the BAC libraries with four and six oligomers, respectively, and the enriched gDNA libraries with four and three oligomers, respectively. Both types of libraries were markedly enriched for SSRs relative to a size-fractionated gDNA library studied earlier. However, only 2% of the sequenced clones obtained from the size-fractionated gDNA library lacked a SSR, whereas 13% and 17% of the sequenced clones obtained from the BAC and enriched gDNA libraries, respectively, lacked a SSR. Primer sets were produced for 313 SSR loci. Two-hundred sixty-six (85%) of the loci were amplified and 165 (53%) of the loci were found to be polymorphic in a population composed of 18 diverse sorghum lines. (AG/TC)n and (AC/TG)n repeats comprised 91% of the dinucleotide SSRs and 52% of all of the SSRs at the polymorphic loci, whereas four types of repeats comprised 66% of the trinucleotide SSRs at the loci. Primer sequences are reported for the 165 polymorphic loci and for eight monomorphic loci that have a high degree of homology to genes. Also reported are the genetic map locations of 113 novel SSR loci (including four SSR-containing gene loci) and a linkage map composed of 147 SSR loci and 323 RFLP (restriction fragment length polymorphism) loci. The number of SSR loci per linkage group ranges from 8 to 30. The SSR loci are distributed relatively evenly throughout approximately 75% of the 1406-cM linkage map, but segments of five linkage groups comprising about 25% of the map either lack or contain few SSR loci. Mapping of SSR loci isolated from BAC clones located to these segments is likely to be the most efficient method for placing SSR loci in the segments.Key words: DNA libraries, linkage mapping, Sorghum bicolor, SSRs.

Melon bacterial artificial chromosome (BAC) library construction using improved methods and identification of clones linked to the locus conferring resistance to melon Fusarium wilt (Fom-2)

Genome ◽  
2001 ◽  
Vol 44 (2) ◽  
pp. 154-162 ◽  
Author(s):  
Meizhong Luo ◽  
Yi-Hong Wang ◽  
David Frisch ◽  
Tarek Joobeur ◽  
Rod A Wing ◽  
...  
Keyword(s):  
Bacterial Artificial Chromosome ◽  
Fusarium Wilt ◽  
Dna Sequences ◽  
Nuclear Dna ◽  
Bac Library ◽  
Artificial Chromosome ◽  
Microtiter Plates ◽  
Bac Libraries ◽  
Average Size ◽  
Improved Methods

Utilizing improved methods, two bacterial artificial chromosome (BAC) libraries were constructed for the multidisease-resistant line of melon MR-1. The HindIII library consists of 177 microtiter plates in a 384-well format, while the EcoRI library consists of 222 microtiter plates. Approximately 95.6% of the HindIII library clones contain nuclear DNA inserts with an average size of 118 kb, providing a coverage of 15.4 genome equivalents. Similarly, 96% of the EcoRI library clones contain nuclear DNA inserts with an average size of 114 kb, providing a coverage of 18.7 genome equivalents. Both libraries were evaluated for contamination with high-copy vector, empty pIndigoBac536 vector, and organellar DNA sequences. High-density filters were screened with two genetic markers FM and AM that co-segregate with Fom-2, a gene conferring resistance to races 0 and 1 of Fusarium wilt. Fourteen and 18 candidate BAC clones were identified for the FM and AM probes, respectively, from the HindIII library, while 34 were identified for the AM probe from filters A, B, and C of the EcoRI library.Key words: bacterial artificial chromosome (BAC) library, Fusarium wilt, melon, pCUGIBAC1, resistant gene.

An SSR genetic map of Sorghum bicolor (L.) Moench and its comparison to a published genetic map

Genome ◽  
2007 ◽  
Vol 50 (1) ◽  
pp. 84-89 ◽  
Author(s):  
Y.Q. Wu ◽  
Yinghua Huang
Keyword(s):  
Sorghum Bicolor ◽  
Genetic Map ◽  
Dna Markers ◽  
Genetic Distances ◽  
Genetic Maps ◽  
Linkage Groups ◽  
Common Marker ◽  
Ssr Loci ◽  
The Difference ◽  
Sorghum Bicolor L

Sorghum bicolor (L.) Moench is an important grain and forage crop grown worldwide. We developed a simple sequence repeat (SSR) linkage map for sorghum using 352 publicly available SSR primer pairs and a population of 277 F2 individuals derived from a cross between the Westland A line and PI 550610. A total of 132 SSR loci appeared polymorphic in the mapping population, and 118 SSRs were mapped to 16 linkage groups. These mapped SSR loci were distributed throughout 10 chromosomes of sorghum, and spanned a distance of 997.5 cM. More important, 38 new SSR loci were added to the sorghum genetic map in this study. The mapping result also showed that chromosomes SBI-01, SBI-02, SBI-05, and SBI-06 each had 1 linkage group; the other 6 chromosomes were composed of 2 linkage groups each. Except for 5 closely linked marker flips and 1 locus (Sb6_34), the marker order of this map was collinear to a published sorghum map, and the genetic distances of common marker intervals were similar, with a difference ratio ≤ 0.05 between the 2 maps. The difference ratio is a new index developed in this study that can be used to compare the genetic distances of DNA markers between 2 maps. This SSR map carrying additional SSR markers will facilitate mapping quantitative trait loci to the sorghum genome and map-based gene cloning. Furthermore, the novel method for calculating distance between DNA markers will be a useful tool for the comparative analysis of genetic markers between linkage maps with different genetic backgrounds and the alignment of different sorghum genetic maps.

scholarly journals SATURATION OF STRIGA RESISTANCE QTLS IN SORGHUM (Sorghum bicolor (L.) MOENCH)

2016 ◽  
Vol 1 (1) ◽  
pp. 43
Author(s):  
Rasha Ali ◽  
Abdalla H. Mohamed ◽  
Adil Elhussein ◽  
Charles T. Hash
Keyword(s):  
Sorghum Bicolor ◽  
Linkage Map ◽  
Marker Assisted Selection ◽  
Genetic Linkage ◽  
Control Measures ◽  
Striga Hermonthica ◽  
Resistance Qtls ◽  
Striga Resistance ◽  
Genomic Regions ◽  
Sorghum Bicolor L

Sorghum bicolor (L.) Moench is the 5th most important cereal crop worldwide. The main biotic constraint to sorghum production is the parasitic weed Striga hermonthica (Del.) Benth. Striga is controlled using a combination of cultural, chemical and bio-control measures which cannot be afforded by farmers. A cost-effective alternative is to breed varieties resistant to Striga. Previous studies involving development of a sorghum genetic linkage map and mapping genomic regions contributing to Striga resistance have shown that resistance is a complex trait controlled by at least five QTLs. Genetic linkage maps provide an important genomic resource for understanding genome organization and evolution, and genetic basis of quantitative traits, and provide useful information for identifying and isolating genes responsible for a given phenotype. Therefore there is need for identification of molecular markers closely linked to these resistance QTLs to improve efficiency of marker-assisted selection (MAS) to accelerate development of Striga-resistant varieties. The aim of this study was to saturate genomic regions of Striga resistance QTLs using SSRs and DArT markers. QTL regions associated with Striga resistance were well saturated and confidence intervals for these QTLs were reduced: 27 SSR markers, two morphological markers, along with 175 DArTs markers were added to the previously mapped skeleton linkage map on linkage groups SBI-01, SBI-02, SBI-05a, SBI-05b and SBI-06 at intervals of 3-5 cM. Identified markers would be useful in marker-assisted selection for Introgression of this trait into susceptible sorghum cultivars. Addition of markers tightly linked to Striga resistance QTLs are not only advantageous for MAS application, but also assisted in saturating the sorghum linkage map.

A RFLP linkage map of Sorghum bicolor (L.) Moench

1994 ◽  
Vol 89-89 (2-3) ◽  
pp. 139-145 ◽  
Author(s):  
G. -W. Xu ◽  
C. W. Magill ◽  
K. F. Schertz ◽  
G. E. Hart
Keyword(s):  
Sorghum Bicolor ◽  
Linkage Map ◽  
Sorghum Bicolor L

Consórcio palma-sorgo sob lâminas de irrigação: balanço de água no solo e coeficientes da cultura

Agrometeoros ◽  
2020 ◽  
Vol 27 (2) ◽  
Author(s):  
Cleber Pereira Alves ◽  
Thieres George Freire Silva ◽  
Hygor Kristoph Muniz Nunes Alves ◽  
Alexandre Maniçoba da Rosa Ferraz Jardim ◽  
Luciana Sandra Bastos de Souza ◽  
...  
Keyword(s):  
Sorghum Bicolor ◽  
Sorghum Bicolor L

Objetivou-se neste estudo quantificar a evapotranspiração real (ETr) e máxima da cultura (ETc) e os coeficientes da cultura (Kc) do consórcio palma-sorgo. O experimento foi conduzido no município de Serra Talhada, PE. O delineamento usado foi em blocos ao acaso, envolvendo cinco lâminas de irrigação (0, 25, 50, 75 e 100% da evapotranspiração de referência - ETo), sob sistema de cultivo consorciado palma-sorgo. O clone de palma forrageira utilizado foi a Orelha de Elefante Mexicana (Opuntia stricta (Haw.) Haw.) e o cultivar de sorgo, Sorghum bicolor (L.) Moench, a SF 15. O sorgo foi conduzido durante dois ciclos (planta e rebrota) compreendidos em um ciclo anual da palma. A quantificação da ETr e da ETc foi realizada através do resíduo do balanço de água no solo (BAS) a cada 14 dias, com a mensuração dos componentes hidrodinâmicos. As determinações da ETc e do Kc foram realizadas com base na lâmina de 75% da ETo. Os componentes do BAS foram submetidos à análise de regressão, sendo testados modelos polinomiais. Com exceção da variação do armazenamento de água no solo, os demais componentes hidrodinâmicos do solo cultivado sob sistema consorciado palma-sorgo respondem linearmente ao aumento de lâminas de irrigação. A evapotranspiração média diária do consórcio palma-sorgo é igual a 3,0 mm dia-1, independentemente da lâmina de irrigação. Os coeficientes do consórcio palma-sorgo são iguais a 0,40, 0,68, 0,90 e 0,52 durante as fases I, II, III e IV de emissão de cladódios.

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