scholarly journals Quantitative Trait Loci Mapping of Stem oBrix Content and Stem Diameter in Sorghum Recombinant Inbred Lines Using Genotype-By-Sequencing

2021 ◽  
Author(s):  
Abera Takele Deressa ◽  
Tileye Feyisa ◽  
Tesfaye Disasa
Keyword(s):  
Sweet Sorghum ◽  
Significant Contribution ◽  
Genetic Linkage Map ◽  
Recombinant Inbred Lines ◽  
Sugar Content ◽  
Growing Season ◽  
Inbred Lines ◽  
Snp Markers ◽  
Stem Diameter ◽  
Genotype By Sequencing

Abstract Sweet sorghum has the ability to store sugar in its stem. Many sugar content genes have been discovered and through breeding worldwide. However, some of these genes are unstable. This study aimed to detect and validate QTL for stem oBrix content from sorghum RILs. In two seasons, QTL linked with stem brix content and related traits were examined using 139 F8RILs from a grain and sweet sorghum. A genetic linkage map with 128 SNP markers was created and several QTLs were identified. Phenotypic variation between 6.33 and 14% was identified for a given trait. Over two seasons, four QTLs for stem brix content (qBrix2-1, qBrix4-1, qBrix4-2, and qBrix10-1) and three QTLs for stem diameter (qSD1-1, qSD8-1 and qSD9-1) were detected. The detected QTL could be useful for improving stem brix content in different growing season. Furthermore, it makes a significant contribution to marker-assisted brix selection and sorghum biofuel improvement.

A high-resolution genetic linkage map of soybean based on 357 recombinant inbred lines genotyped with BARCSoySNP6K

2015 ◽  
Vol 35 (2) ◽  
Author(s):  
Sungwoo Lee ◽  
Keith R. Freewalt ◽  
Leah K. McHale ◽  
Qijian Song ◽  
Tae-Hwan Jun ◽  
...  
Keyword(s):  
High Resolution ◽  
Linkage Map ◽  
Recombinant Inbred ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Recombinant Inbred Lines ◽  
Inbred Lines

scholarly journals Development of NGS-based New CAPS Markers and QTL Analysis of Stem Diameter using Milyang23/Gihobyeo Recombinant Inbred Lines (MGRIL)

2016 ◽  
Vol 48 (3) ◽  
pp. 217-233
Author(s):  
Ye-Ji Lee ◽  
Eun-Ju Byeon ◽  
Seon-Hwa Bae ◽  
Hyeonso Ji ◽  
Gang-Seob Lee ◽  
...  
Keyword(s):  
Qtl Analysis ◽  
Recombinant Inbred ◽  
Recombinant Inbred Lines ◽  
Inbred Lines ◽  
Stem Diameter ◽  
Caps Markers

scholarly journals Identification of QTL Underlying Seed Micronutrients Accumulation in ‘MD 96-5722’ by ‘Spencer’ Recombinant Inbred Lines of Soybean

2017 ◽  
Vol 1 (3) ◽  
pp. 39-49 ◽  
Author(s):  
Nacer Bellaloui ◽  
Laila Khandaker ◽  
Masum Akond ◽  
Stella K. Kantartzi ◽  
Khalid Meksem ◽  
...  
Keyword(s):  
Recombinant Inbred ◽  
Recombinant Inbred Lines ◽  
Inbred Lines ◽  
Snp Markers ◽  
Linkage Groups ◽  
Seed Industry ◽  
Similar Region ◽  
Nutritional Qualities ◽  
Genetic Mechanisms ◽  
Nutritional Needs

Genetic mapping of quantitative trait loci (QTL) associated with seed nutrition levels is almost non-existent. The objective of this study was to identify QTLs associated with seed micronutrients (iron, Fe; zinc, Zn; bororn, B; manganese, Mn; and copper, Cu) accumulation (concentration) in a population of 92 F5:7 recombinant inbred lines (RILs) that derived from a cross between MD 96-5722 (MD) and ‘Spencer’. For this purpose, a genetic linkage map based on 5,376 Single Nucleotide Polymorphism (SNP) markers was constructed using the Illumina Infinium SoySNP6K BeadChip array. The RILs were genotyped using 537 polymorphic, reliably segregating SNP markers. A total of 23 QTLs for micronutrients Fe, Zn, B, Mn, and Cu have been identified and mapped on eight linkage groups (LGs) of the soybean genome. Five QTLs were detected for Fe (qIRO001- qIRO005) on LGs N, A1, K, J, and G. Seven QTLs for Zn (qZIN001-qZIN007) on LGs D1a (Chr 1), N (Chr 3), F (Chr 5), B2 (Chr 14), J (Chr 16), A1 (Chr 5), and K (Chr 9). Two QTLs for B (qBOR001 and qBOR002) were detected on LGs N and A1. Four QTLs were detected for Mn (qMAN001-qMAN004) on LGs N, A1, K, and J, and five QTLs were detected for Cu (qCOP001- qCOP005) on LGs N, A1, K, J, and G). It was observed that the four QTLs for Zn, Cu, Fe, and Mn on LGs N (Chr 3), LG A1 (Chr 5), and LG J (Chr 16) were clustered in a similar region of the linkage groups, suggesting possible shared physiological and genetic mechanisms. The QTLs detected in this study are novel and will contribute to our understanding of the genetic basis of seed mineral nutrition. This research would allow breeders to efficiently select for higher seed nutritional qualities to meet the seed industry and human and livestock nutritional needs.

scholarly journals Genetic Mapping of QTL Associated with Seed Macronutrients Accumulation in ‘MD 96-5722’ by ‘Spencer’ Recombinant Inbred Lines of Soybean

2017 ◽  
Vol 3 (2) ◽  
pp. 224-235 ◽  
Author(s):  
Nacer Bellaloui ◽  
Laila Khandaker ◽  
Masum Akond ◽  
Stella K. Kantartzi ◽  
Khalid Meksem ◽  
...  
Keyword(s):  
Recombinant Inbred ◽  
Genetic Relationships ◽  
Recombinant Inbred Lines ◽  
Soybean Seed ◽  
Peak Position ◽  
Inbred Lines ◽  
Snp Markers ◽  
Nutrition Quality ◽  
C And N ◽  
N:S Ratio

Research of quantitative trait loci (QTL) for macronutrient accumulation in soybean seed is limited. Therefore, the objective of this research was to identify QTL related to macronutrients (N, C, S, P, K, Ca, and Mg) in seeds in 92 F5:7 recombinant inbred lines (RILs) developed from a cross between MD 96-5722 (MD) and Spencer using a total 5,376 Single Nucleotide Polymorphism (SNP) markers. A genetic linkage map based on SNP markers was constructed using the Illumina Infinium SoySNP6K BeadChip Array. The RILs were genotyped using 537 polymorphic, reliably segregating SNP markers. A total of 8 QTL for K (qPOT001-qPOT008) were identified on LGs D1b (Chr 1), N (Chr 3), A1 (Chr 5), O (Chr 10), F (Chr 13), B2 (Chr 14), and J (Chr 16). Four QTL for Mg (qMAG001-qMAG004) were identified on LGs N (Chr 3), A1 (Chr 5), J (Chr 16), and G (Chr 18). One QTL for P (qPHO001), one for C on LG J (Chr 16), one for N (qNIT001) and S (qSUL001) on the same LG J (Chr 16), and one QTL for Ca (qCAL001) on LG G (Chr 18). K and Mg QTL were clustered together on LG A1 (Chr 5) with a peak position of 9.50 cM and  LOD support interval of 8.50-9.50 cM. Similar observation was noticed for P, K, Mg, C, N, and S, where the QTL were clustered on LG J (Chr 16) with peak position of 11 cM for K, P, and S, and 10 cM for C and N, and 12 cM for Mg. The LOD support intervals for all these clustered QTL were between 8.90 and 12.30 cM. The QTL clustering of these nutrients suggests possible common physiological and genetic relationships, suggesting possible similar metabolic processes and pathways  for these nutrients. The inverse relationships between N:S ratio and all nutrients suggest possible use of N:S ratio as a measure for higher nutrients accumulation in seed. Since most of QTL identified in this study were not previously reported, this research will further help breeders to improve nutrient accumulation in seeds and contribute to our understanding of the physiological and genetic bases of seed nutrition quality.

scholarly journals Construction of a genetic linkage map in Lilium using a RIL mapping population based on SRAP marker

Genetika ◽  
2015 ◽  
Vol 47 (2) ◽  
pp. 425-438 ◽  
Author(s):  
Li-Jing Chen ◽  
Hong-Mei Li ◽  
Shao-Kun Sun ◽  
Muhammad Irfan ◽  
Jing-Wei Lin ◽  
...  
Keyword(s):  
Linkage Map ◽  
Recombinant Inbred ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Mapping Population ◽  
Recombinant Inbred Lines ◽  
Inbred Lines ◽  
Linkage Groups ◽  
Marker Interval ◽  
Interval Distance

A genetic linkage map of lily was constructed using RILs (recombinant inbred lines) population of 180 individuals. This mapping population was developed by crossing Raizan No.1 (Formolongo) and Gelria (Longiflomm) cultivars through single-seed descent (SSD). SRAPs were generated by using restriction enzymes EcoRI in combination with either MseI. The resulting products were separated by electrophoresis on 6% denaturing polyacrylamide gel and visualized by silver staining. The segregation of each marker and linkage analysis was done using the program Mapmaker3.0. With 50 primer pairs, a total of 189 parental polymorphic bands were detected and 78 were used for mapping. The total map length was 2,135.5 cM consisted of 16 linkage groups. The number of markers in the linkage groups varied from 1 to 12. The length of linkage groups was range from 11.2 cM to 425.9 cM and mean marker interval distance range from 9.4 cM to 345.4 cM individually. The mean marker interval distance between markers was 27.4 cM. The map developed in the present study was the first sequence-related amplified polymorphism markers map of lily constructed with recombinant inbred lines, it could be used for genetic mapping and molecular marker assisted breeding and quantitative trait locus mapping of Lilium.

An improved genetic linkage map for cowpea (Vigna unguiculata L.) Combining AFLP, RFLP, RAPD, biochemical markers, and biological resistance traits

Genome ◽  
2002 ◽  
Vol 45 (1) ◽  
pp. 175-188 ◽  
Author(s):  
J T Ouédraogo ◽  
B S Gowda ◽  
M Jean ◽  
T J Close ◽  
J D Ehlers ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Linkage Map ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Fragment Length Polymorphism ◽  
Recombinant Inbred Lines ◽  
Inbred Lines ◽  
Resistance Gene Analogs ◽  
Biological Resistance ◽  
Resistance Traits

An improved genetic linkage map has been constructed for cowpea (Vigna unguiculata L. Walp.) based on the segregation of various molecular markers and biological resistance traits in a population of 94 recombinant inbred lines (RILs) derived from the cross between 'IT84S-2049' and '524B'. A set of 242 molecular markers, mostly amplified fragment length polymorphism (AFLP), linked to 17 biological resistance traits, resistance genes, and resistance gene analogs (RGAs) were scored for segregation within the parental and recombinant inbred lines. These data were used in conjunction with the 181 random amplified polymorphic DNA (RAPD), restriction fragment length polymorphism (RFLP), AFLP, and biochemical markers previously mapped to construct an integrated linkage map for cowpea. The new genetic map of cowpea consists of 11 linkage groups (LGs) spanning a total of 2670 cM, with an average distance of 6.43 cM between markers. Astonishingly, a large, contiguous portion of LG1 that had been undetected in previous mapping work was discovered. This region, spanning about 580 cM, is composed entirely of AFLP markers (54 in total). In addition to the construction of a new map, molecular markers associated with various biological resistance and (or) tolerance traits, resistance genes, and RGAs were also placed on the map, including markers for resistance to Striga gesnerioides races 1 and 3, CPMV, CPSMV, B1CMV, SBMV, Fusarium wilt, and root-knot nematodes. These markers will be useful for the development of tools for marker-assisted selection in cowpea breeding, as well as for subsequent map-based cloning of the various resistance genes.Key words: Cowpea, AFLP, RAPD, resistance gene analogs, genetic linkage map.

scholarly journals A Genetic Linkage Map for Watermelon Derived from Recombinant Inbred Lines

2004 ◽  
Vol 129 (2) ◽  
pp. 237-243 ◽  
Author(s):  
Renbing Zhang ◽  
Yong Xu ◽  
Ke Yi ◽  
Haiying Zhang ◽  
Ligong Liu ◽  
...  
Keyword(s):  
Linkage Map ◽  
Recombinant Inbred ◽  
Genetic Linkage ◽  
Genetic Linkage Map ◽  
Citrullus Lanatus ◽  
Average Distance ◽  
Recombinant Inbred Lines ◽  
Plant Introduction ◽  
Inter Simple Sequence Repeat ◽  
Inbred Lines

A genetic linkage map was constructed for watermelon using 117 recombinant inbred lines (RILs) (F2S7) descended from a cross between the high quality inbred line 97103 [Citrullus lanatus var. lanatus (Thunb.) Matsum. & Nakai] and the Fusarium wilt (races 0, 1, and 2) resistant U.S. Plant Introduction (PI) 296341 (C. lanatus var. citroides). The linkage map contains 87 randomly amplified polymorphic DNA (RAPD) markers, 13 inter simple sequence repeat (ISSR) markers, and four sequenced characterized amplified region (SCAR) markers. The map consists of 15 linkage groups. Among them are a large linkage group of 31 markers covering a mapping distance of 277.5 cM, six groups each with 4 to 12 markers covering a mapping distance of 51.7 to 172.2 cM, and eight small groups each with 2-5 markers covering a mapping distance of 7.9 to 46.4 cM. The map covers a total distance of 1027.5 cM with an average distance of 11.7 cM between two markers. The map is useful for the further development of quantitative trait loci (QTLs) affecting fruit qualities and for identification of genes conferring resistance to Fusarium wilt (races 0, 1 and 2). The present map can be used for further construction of a reference linkage map for watermelon based on an immortalized mapping population with progenies homozygous for most gene loci.

scholarly journals 550 Mapping of QTL for Partial Physiological Resistance and Field Reaction to White Mold, Plant Architecture, and Plant Height in Common Bean

HortScience ◽  
2000 ◽  
Vol 35 (3) ◽  
pp. 490D-490
Author(s):  
Soon O. Park ◽  
Dermot P. Coyne ◽  
James R. Steadman ◽  
Paul W. Skroch ◽  
Geunhwa Jung
Keyword(s):  
Plant Height ◽  
Plant Architecture ◽  
Genetic Linkage Map ◽  
Recombinant Inbred Lines ◽  
Inbred Lines ◽  
Field Resistance ◽  
White Mold ◽  
Field Reaction ◽  
Significant Locus ◽  
Physiological Resistance

The objective was to detect molecular markers associated with QTL for partial physiological resistance (PPR) to two white mold (WM) isolates, partial field resistance (PFR), plant architecture (PA), and plant height (PH) in a genetic linkage map constructed using recombinant inbred lines (RILs) from the cross `PC-50' (resistant to WM) × XAN-159 (susceptible to WM). Significant correlations (+0.39 and +0.47) were noted between the WM reactions in the greenhouse and field. A significant but negative correlation (–0.33) was observed between the WM reaction and PH in the field. Six QTL affecting PPR to isolate 152 were found on LGs 4, 5, 7, and 8. Six QTL affecting PPR to isolate 279 were found on LGs 2, 3, 4, 7, and 8. Five QTL for PFR were observed on LGs 2, 5, 7, 8, and 11. Two QTL affecting PA were detected on LGs 7 and 8. Two QTL affecting PH were identified on LGs 7 and 8. On one end of LG 8 marker H19.1250 was significant for PPR to both isolates. On the other end of LG 8 the region closely linked to the C locus was significantly associated with PPR to both isolates, PFR, PA and PH. Marker J09.950 on LG 7 was significantly associated with PPR to both isolates, PFR, PH and seed weight. Marker J01.2000 on LG 2 was the most significant locus for both PPR to the isolate 279 and PFR. QTL on LG 5 were found for PPR to the isolate 152 and PFR. Overall, four of the five QTL affecting PFR were also found for PPR to one or both isolates.

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