SSR Mapping of Genes Conditioning Soybean Resistance to Six Isolates of Xanthomonas axonopodis pv. glycines

Van, Kyujung,Ha, Bo-Keun,Kim, Moon Young,Moon, Joong Kyung,Paek, Nam-Chon,Heu, Sunggi,Lee, Suk-Ha 한국유전학회 2004 Genes & Genomics Vol.26 No.1

Bacterial leaf pustule (BLP), caused by xanthomonas axonopodis pv. glycines, is one of the most prevalent bacterial diseases in plants. Qualtitative trait loci (QTLs) for resistance to BLP in soybean (Clycine max [Glycine max [L.] Merr.) were identified using simple sequence repeat (SSR) markers, and the consistency of QTL detection across bacterial isolates as well as across greenhouse and field experiments was examined. Recombinant inbred lines (RILs) derived from a cross of BLP-susceptible 'Suwon157' and BLP-resistant 'Danbaekkong' were utilized to identify QTLs conditioning resistance to BLP with 76 SSR markers. For phenotypic analysis, six isolates of X. axonopodis were collected from different geographical locations. A combination of single-factor analysis of variance and multiple regression analysis revealed that three QTLs conditioned resistance to BLP in the field.. Under greenhouse conditions, one to four QULs were revealed to be associated with resistance to each isolate. Satt372 on linkage group (LG) D2 was associated with resistance to all six isolates under greenhouse and field conditions, indicating that resistance to BLP was mainly controlled by a single major gene tightly linked to Satt372. Several minor QTLs of LG A1, C1, F, L, and O were also found to condition resistance to various isolates.

Influence of Light on Biomass of Soybean in Narrow Strip Cropping of Oat, Corn, and Soybean

Van, Kyujung The Korean Society of Crop Science 2002 Korean journal of crop science Vol.47 No.5

The strip intercropping system has used due to many advantages. Many researches supported these crop systems are usually equal to or better than monoculture crop systems in both total production and profit. There was no research to examine the important ecological factors in the competition between crops. A strip intercropping system composed of adjacent narrow strips of corn, soybean, and oat/legumes has been investigated in Iowa, USA. This study conducted to investigate why and how the differences in soybean yield are produced and affected by light, one of the microclimate, of the strip intercropping system. In height, the two rows of soybean closest to corn were taller than the two rows near the then-empty oat strip. The height of each crop decreased as the amount of light received increased. Weight of plant parts was lowest in row 1, nearest corn, and highest in row 4, next to the vacant oat strip. Daily photon flux density(PFD) increased with increasing distance from corn, with the highest value occurring on the edge next to the empty oat strip. Analyses of the relationship between light and biomass of soybean showed that all biomass measurements had a positive relationship to total PFD per day except height.

Genome-wide scan of the soybean genome using degenerate oligonucleotide primed PCR: an example for studying large complex genome structure

Van, Kyujung,Kang, Yang Jae,Shim, Sang Rea,Lee, Suk-Ha Springer-Verlag 2012 Genes & Genomics Vol.34 No.5

Analysis of EMS-induced soybean mutants by combination of DOP-PCR and GS FLX

Kyujung Van,Hyun-Ju Jang,Young-Eun Jang,Kyungdo Kim,Suk-Ha Lee 한국작물학회 2008 한국작물학회 학술발표대회 논문집 Vol.2008 No.10

EMS was commonly used to induce mutations for various organisms, causing nucleotides to mispair with their complementary bases. So, chemical mutagenesis has become the best method for inducing mutations in genetic studies. Simple PCR-based detection and high-throughput technologies helped to screen and identify mutations. Degenerate oligonucleotide primed PCR (DOP-PCR) became getting attention for mutation survey because the requirement of sequence information and high cost for designing primers could be diminished. Also, high-throughput sequencing instruments, such as GS-FLX, allowed characterization of nucleic acids and massive mutant analysis. A total of 6,696 aligned pairs for Sinpaldalkong 2 vs. SS2-2 and 6,935 for Sinpaldalkong 2 vs. 25-1-1 were formed for mutation detection. A mutation every 437 bp in SS2-2 and every 402 bp in 25-1-1 was observed. About 2/3 of a total of mutations were single base variation in both comparisons. Mutated and non-mutated fragments from SS2-2 and 25-1-1 were distributed on all LGs. The 25-1-1 had more mutations than SS2-2 compared with their wild type, Sinpaldalkong 2. Local compositional bias was also observed around the mutated G. Our modified DOP-PCR primers were successfully amplified and their amplicons were located on randomly but somewhat targeted regions of soybean genome.

Influence of Light on Biomass of Soybean in Narrow Strip Cropping of Oat, Corn, and Soybean

Kyujung Van 韓國作物學會 2002 Korean journal of crop science Vol.47 No.5

The strip intercropping system has used due to many advantages. Many researches supported these crop systems are usually equal to or better than monoculture crop systems in both total production and profit. There was no research to examine the important ecological factors in the competition between crops. A strip intercropping system composed of adjacent narrow strips of corn, soybean, and oat/legumes has been investigated in Iowa, USA. This study conducted to investigate why and how the differences in soybean yield are produced and affected by light, one of the microclimate, of the strip intercropping system. In height, the two rows of soybean closest to corn were taller than the two rows near the then-empty oat strip. The height of each crop decreased as the amount of light received increased. Weight of plant parts was lowest in row 1, nearest corn, and highest in row 4, next to the vacant oat strip. Daily photon flux density(PFD) increased with increasing distance from corn, with the highest value occurring on the edge next to the empty oat strip. Analyses of the relationship between light and biomass of soybean showed that all biomass measurements had a positive relationship to total PFD per day except height.

Sequence Level Analysis of Recently Duplicated Regions in Soybean [ <i>Glycine max</i> (L.) Merr.] Genome

Van, Kyujung,Kim, Dong Hyun,Cai, Chun Mei,Kim, Moon Young,Shin, Jin Hee,Graham, Michelle A.,Shoemaker, Randy C.,Choi, Beom-Soon,Yang, Tae-Jin,Lee, Suk-Ha Oxford University Press 2008 DNA research Vol.15 No.2

<P>A single recessive gene, <I>rxp</I>, on linkage group (LG) D2 controls bacterial leaf-pustule resistance in soybean. We identified two homoeologous contigs (GmA and GmA′) composed of five bacterial artificial chromosomes (BACs) during the selection of BAC clones around <I>Rxp</I> region. With the recombinant inbred line population from the cross of Pureunkong and Jinpumkong 2, single-nucleotide polymorphism and simple sequence repeat marker genotyping were able to locate GmA′ on LG A1. On the basis of information in the Soybean Breeders Toolbox and our results, parts of LG A1 and LG D2 share duplicated regions. Alignment and annotation revealed that many homoeologous regions contained kinases and proteins related to signal transduction pathway. Interestingly, inserted sequences from GmA and GmA′ had homology with transposase and integrase. Estimation of evolutionary events revealed that speciation of soybean from <I>Medicago</I> and the recent divergence of two soybean homoeologous regions occurred at 60 and 12 million years ago, respectively. Distribution of synonymous substitution patterns, <I>K</I><SUB>s</SUB>, yielded a first secondary peak (mode <I>K</I><SUB>s</SUB> = 0.10–0.15) followed by two smaller bulges were displayed between soybean homologous regions. Thus, diploidized paleopolyploidy of soybean genome was again supported by our study.</P>

Genetic Variation in Sprout-related Traits and Microsatellite DNA Loci of Soybean

Kyujung Van,Moon Young Kim,Jae-Gyun Gwag,Kyung-Geun Bae,Young Jin Oh,Kyong Ho Kim,Ho Ki Park,Suk-Ha Lee 韓國作物學會 2003 Korean journal of crop science Vol.48 No.5

Genetic diversity and soybean sprout-related traits were evaluated in a total of 72 soybean accessions (60 Glycine max, 7 Glycine soja, and 5 Glycine gracilis). 100-seed weight (SW) was greatly varied and ranged from 3.2g to 32.3g in 72 soybean accessions. Positive correlation was observed between GR and hypocotyl length (HL), whereas negative correlation was observed between SW and hypocotyl diameter (HD). Re-evaluation by discarding two soybean genotypes characterized with low GR indicated that much higher correlation of sprout yield (SY) with HD and SW. Based on the principal component analysis (PCA) for sprout-related traits, 57 accessions were classified. Soybean genotypes with better traits for sprout, such as small size of seeds and high SY, were characterized with high PCA 1 and PCA 2 values. The seed size in second is small but showed low GR and SY, whereas the third has large seed, high GR and more than 400% SY. In genetic similarity analysis using 60 SSR marker genotyping, 72 accessions were classified into three major and several minor groups. Nine of twelve accessions that were identified as the representatives of soybean for sprout based on PCA were in a group by the SSR marker analysis, indicating the SSR marker selection of parental genotypes for soybean sprout improvement program.

Differential Gene Expression of Soybean[Glycine max(L.) Merr.] in Response to Xanthomonas axonopodis pv. glycines by Using Oligonulceotide Macroarray

Van, Kyujung,Lestari, Puji,Park, Yong-Jin,Gwag, Jae-Gyun,Kim, Moon-Young,Kim, Dong-Hyun,Heu, Sung-Gi,Lee, Suk-Ha The Korean Society of Crop Science 2007 Journal of crop science and biotechnology Vol.10 No.3

Xanthomonas axonopodis pv. glycines(Xag) is a pathogen that causes bacterial leaf pustule(BLP) disease in soybeans grown in Korea and the southern United States. Typical and early symptoms of the disease are small, yellow to brown lesions with raised pustules that develop into large necrotic lesions leading to a substantial loss in yield due to premature defoliation. After Xag infects PI 96188, only pustules without chlorotic haloes were observed, indicating the different response to Xag. To identify differentially expressed genes prior to and 24 hr after Xag inoculation to PI 96188 and BLP-resistant SS2-2, an oligonucleotide macroarray was constructed with 100 genes related to disease resistance and metabolism from soybean and Arabidopsis. After cDNAs from each genotype were applied on the oligonucleotide macroarrays with three replicates and dye swapping, 36 and 81 genes were expressed as significantly different between 0 hr and 24 hr in PI 96188 and SS2-2, respectively. Six UniGenes, such as the leucine-rich repeat protein precursor or 14-3-3-like protein, were selected because they down-regulated in PI 96188 and up-regulated in SS2-2 after Xag infection, simultaneously. Using tubulin and cDNA of Jangyeobkong(BLP-susceptible) as controls, the oligonucleotide macroarray data concurred with quantitative real-time RT-PCR(QRT RT-PCR) results in most cases, supporting the accuracy of the oligonucleotide macroarray experiments. Also, QRT RT-PCR data suggested six candidate genes that might be involved in a necrotic response to Xag in PI 96188.

Soybean cultivars screening for resistance to Phomopsis seed decay in Korea

Suli Sun,Kyujung Van,Moon Young Kim,Yeong-Ho Lee,Ahra Bae,Hyun Ju Jang,Suk-Ha Lee 한국육종학회 2012 한국육종학회 심포지엄 Vol.2012 No.07

Phomopsis seed decay (PSD), primarily caused by Phomopsis longicolla, is a major contributor to poor soybean seed quality and significant yield loss, particularly in early maturing soybean genotypes. However, it is not yet known whether PSD resistance is associated with early maturity. This study was conducted to identify quantitative trait loci (QTLs) for resistance to PSD and maturity time using a recombinant inbred line (RIL) population derived from a cross between the PSD-resistant Taekwangkong and the PSD-susceptible SS2-2. Based on a genetic linkage map incorporating 117 simple sequence repeat markers, QTL analysis revealed two and three QTLs conferring PSD resistance and maturity time, respectively, in the RIL population. Two QTLs (PSD-6-1 and PSD-10-2) for PSD resistance were identified in the intervals of Satt100-Satt460 and Sat_038-Satt243 on chromosomes (Chrs) 6 and 10, respectively. These QTLs do not overlap with any previously reported loci for PSD resistance in other soybean genotypes. Two QTLs explained phenotypic variances in PSD resistance of 46.3% and 14.1%, respectively. Among three QTLs for maturity time, two (Mat-6-2 and Mat-10-3) were located at positions similar to the PSD resistance QTLs. The identification of the QTLs linked to both PSD resistance and maturity time indicates a biological correlation between these two traits. The newly identified QTLs for resistance to PSD associated with maturity time in Taekwangkong will help improve soybean resistance to P. longicolla.

Development of high-quality soybean cultivars using genome sequence information

Suk-Ha Lee,Kyujung Van,Moon Young Kim,Yeong-Ho Lee,Yangjae Kang 한국육종학회 2012 한국육종학회 심포지엄 Vol.2012 No.07

The purposes of this research project are to identify quantitative trait loci (QTLs) associated with yield-related traits using a recombinant inbred line (RIL) population derived from a cross between a high-yield soybean genotype SS0404-T5-76 and Daewonkong and to develop high-yield soybean and lodging-resistant sprout soybean cultivars. For development of DNA markers and identification of functional sequence variations, firstly, whole genome of five soybean genotypes, Sinpaldalkong 2, SS2-2, Pungsanamulkong, SS0404-T5-76 and Daewongkong, were sequenced using Illumina Hi-Seq technology. SS2-2 is a EMS-induced mutant of Sinpadalkong 2. SS0404-T5-76 showing high-yield is a F8 RIL derived from a cross of Pungsanamulkong x SS2-2. Daewonkong is a elite cultivar with high-protein. Furthermore, to construct a genetic linkage map, we are advancing F4 lines of SS0404-T5-76 x Daewonkong by single seed-descent. Secondly, we developed high-protein and high-yield soybean lines and lodging-resistant sprout lines. Area-adaptability tests of these promising lines are performing in three different locations including Jeju, Naju, and Suwon. Based on the results of area adaptability tests, we are planing to conduct cultivar registration of the promising soybean lines.