Genetic Analysis of Segregation Distortion of SSR Markers in F2 Population of Barley

Liu, Xianjun; You, Jinmei; Guo, Leilei; Liu, Xinchun; He, Yujing; Yuan, Jin`e; Liu, Guoxiang; Feng, Zongyun

doi:10.5539/jas.v3n2p172

Cited by 15 publications

(15 citation statements)

References 33 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…SDRs in many plants do not follow the distribution according to Mendel law of segregation [14]–[16]. Comparing and integrating SDRs in different populations is extremely useful when analyzing the genetic basis of segregation and understanding different genetic characteristics [17].…”

Section: Introductionmentioning

confidence: 99%

Exploring the Genetic Characteristics of Two Recombinant Inbred Line Populations via High-Density SNP Markers in Maize

et al. 2012

View full text Add to dashboard Cite

Understanding genetic characteristics can reveal the genetic diversity in maize and be used to explore evolutionary mechanisms and gene cloning. A high-density linkage map was constructed to determine recombination rates (RRs), segregation distortion regions (SDRs), and recombinant blocks (RBs) in two recombinant inbred line populations (RILs) (B73/By804 and Zong3/87-1) generated by the single seed descent method. Population B73/By804 containing 174 lines were genotyped with 198 simple sequence repeats (SSRs) markers while population Zong3/87-1 comprised of 175 lines, were genotyped with 210 SSR markers along with 1536 single nucleotide polymorphism (SNP) markers for each population, spanning 1526.7 cM and 1996.2 cM in the B73/By804 and Zong3/87-1 populations, respectively. The total variance of the RR in the whole genome was nearly 100 fold, and the maximum average was 10.43–11.50 cM/Mb while the minimum was 0.08–0.10 cM/Mb in the two populations. The average number of RB was 44 and 37 in the Zong3/87-1 and B73/By804 populations, respectively, whereas 28 SDRs were observed in both populations. We investigated 11 traits in Zong3/87-1 and 10 traits in B73/By804. Quantitative trait locus (QTLs) mapping of SNP+SSR with SNP and SSR marker sets were compared to showed the impact of different density markers on QTL mapping and resolution. The confidence interval of QTL Pa19 (FatB gene controlling palmitic acid content) was reduced from 3.5 Mb to 1.72 Mb, and the QTL Oil6 (DGAT1-2 gene controlling oil concentration) was significantly reduced from 10.8 Mb to 1.62 Mb. Thus, the use of high-density markers considerably improved QTL mapping resolution. The genetic information resulting from this study will support forthcoming efforts to understand recombination events, SDRs, and variations among different germplasm. Furthermore, this study will facilitate gene cloning and understanding of the fundamental sources of total variation and RR in maize, which is the most widely cultivated cereal crop.

show abstract

Section: Introductionmentioning

confidence: 99%

Exploring the Genetic Characteristics of Two Recombinant Inbred Line Populations via High-Density SNP Markers in Maize

et al. 2012

View full text Add to dashboard Cite

show abstract

“…It is unknown whether SDR are common in different segregating mapping populations ( l iu et al 2010). Different factors influencing segregation distortion in plants including type of mapping population, gametophytic competition, abortion of gametes or zygotes, unbalanced meoitic products, and response to environmental conditions ( l iu et al 2010, 2011). Segregation distortion can also occur as a result of conscious or unconscious selection during the development of mapping populations ( l i et al 2015).…”

mentioning

confidence: 99%

Wheat Landrace Genome Diversity

et al. 2017

View full text Add to dashboard Cite

show abstract

“…Distorted segregation can occur because of statistical bias (genotyping and scoring errors) or biological factors, such as chromosome loss, gametophytic competition which lead to preferential transmission of certain alleles; zygotic selection which is observed in differential survival ability to mature; incompatibility genes; unilateral incongruity or non homologous recombination; viability selection of segregating plants; gene transfer; transposable element; and environmental agents (Christiansen, 1980;Liu et al, 2011;Saliba-Colombani et al, 2000;Semagn et al, 2006;Zhao et al, 2006). Zhao et al (2006) inferred the potential factors involved in marker segregation distortion of an F 2 population of rice by calculating the allele frequency (p and q) and the distribution of F 2 genotype frequency (p 2 :2pq:q 2 ).…”

Section: Introductionmentioning

confidence: 99%

Segregation Analysis of SSR, SNP, and AFLP Markers in F2 Population of Solanum lycopersicum × S. arcanum (Analisis Segregasi Marka SSR, SNP, dan AFLP pada Populasi F2 Persilangan Solanum lycopersicum × S. arcanum)

Chaerani

Voorrips²

2016

J. AgroBiogen

View full text Add to dashboard Cite

ABSTRAKPenyimpangan segregasi marka biasa terjadi pada persilangan antarspesies pada berbagai komoditas tanaman. Penelitian terdahulu mengenai pemetaan lokus ketahanan terhadap jamur hawar dini (Alternaria solani) menunjukkan penyimpangan segregasi dari 52% marka yang terpetakan pada peta pautan 176 progeni F 2 dari persilangan Solanum lycopersicum cv. Solentos × S. arcanum LA2157. Tujuan penelitian ini adalah menganalisis lebih detil segregasi marka pada peta pautan tersebut dan menentukan penyebab penyimpangan segregasi dengan menghitung frekuensi alel dan genotipe F 2 dari tiap marka. Dari 371 marka yang terpetakan, 192 di antaranya menyimpang dari rasio Mendel 1 : 2 : 1. Penyimpangan marka terjadi pada semua kromosom, sebesar 1% sampai 9%. Surplus alel homozigot S. arcanum (40%) menjadi penyumbang terbesar penyimpangan segregasi, diikuti oleh heterozigot (18%) dan homozigot S. lycopersicum (5%). Frekuensi alel dari 152 marka menyimpang dari frekuensi homogenitas alel yang diharapkan, yang mungkin disebabkan oleh seleksi gametofitik. Enam puluh satu marka menyimpang dari distribusi frekuensi genotipe F 2 yang diharapkan, yang dapat diakibatkan oleh segregasi zigotik. Segregasi 37 marka menyimpang dari frekuensi homogenitas alel dan distribusi genotipe F 2 yang diharapkan. Marka dengan segregasi menyimpang tetap dapat digunakan dalam analisis pautan karena lokus ketahanan terhadap jamur hawar dini juga teridentifikasi pada daerah kromosom yang mengandung marka-marka terdistorsi. Identifikasi lebih lanjut mengenai mekanisme penyimpangan segregasi memerlukan kajian pemetaan yang ekstensif dan mendalam.Kata kunci: Tomat, Solanum arcanum, distorsi segregasi marka. ABSTRACTDistorted marker segregation is a common phenomenon in interspecific cross of various crops. Previous mapping study of early blight fungus (Alternaria solani) resistance loci showed 52% marker distortion in the genetic linkage map of 176 F 2 progenies derived from Solanum lycopersicum cv. Solentos × S. arcanum LA2157. The objectives of this study were to analyze in detail the marker segregation in the map and to determine the cause of segregation distortion by calculating the allele and genotype frequencies of each marker. Out of 371 mapped markers, 192 markers deviated from the expected Mendelian ratio of 1 : 2 : 1. Distorted markers occurred in all chromosomes, ranging from 1% to 92%. Surplus of S. arcanum homozygotes contributed most to the skewness (40%), followed by heterozygotes (18%), and S. lycopersicum homozygotes (5%). The allele frequencies of 152 markers deviated from the expected allele homogeneity frequency, indicating that their segregation might be affected by gamethophytic selection. Sixty-one markers deviated from the expected F 2 genotype frequency distribution, indicating that their segregation might be influenced by zygotic selection. Thirty-seven of the distorted markers showed deviation from expected frequencies of allele homogeneity and F 2 genotype frequency distribution. Distorted markers can be retained in linkage analy...

show abstract

Genetic Analysis of Segregation Distortion of SSR Markers in F2 Population of Barley

Cited by 15 publications

References 33 publications

Exploring the Genetic Characteristics of Two Recombinant Inbred Line Populations via High-Density SNP Markers in Maize

Exploring the Genetic Characteristics of Two Recombinant Inbred Line Populations via High-Density SNP Markers in Maize

Wheat Landrace Genome Diversity

Segregation Analysis of SSR, SNP, and AFLP Markers in F2 Population of Solanum lycopersicum × S. arcanum (Analisis Segregasi Marka SSR, SNP, dan AFLP pada Populasi F2 Persilangan Solanum lycopersicum × S. arcanum)

Contact Info

Product

Resources

About