Next-generation sequencing (NGS) technology and fast improvement in plant genetics have elevated to massive development of molecular genetic markers through fast analysis of huge molecular biological data. Furthermore, in domestic commercial breeding of horticultural crops, the application of marker assisted breeding (MAB) has been introduced recently. For effective improvement of cultivar breeding, in this research, transcriptome analysis and single nucleotide polymorphism (SNP) comparison with high density pepper map in UC-DAVIS were performed using four lines of Capsicum annuum and C. chinense. For rapid analysis of MAB of tolerant pepper lines, 412 Fluidigm probes were newly designed in this study. These designed probes and SSR and COSII markers were applied for background selection through the MAB program. In addition, powdery mildew (PM), tomato spot wilt virus (TSWV) resistance related markers were subjected to foreground selection of BC1, BC2, and BC3 progenies. The MAB system using Fluidigm probes, and trait-related and common markers was introduced into domestic pepper breeding, which will rapidly approach to a new elite line and a commercial tolerant cultivar.

‘MS-CDE’와 ‘VFR’의 고정된 계통을 교배하여 특성 및 수량이 우수한 F1 품종인 ‘TY알토랑’을 육성하였다. ‘TY알토랑’의 주요특성은 TMV, TYLCV, 근부위조병, 잎곰팡이병에 내병성이며, 2~3월, 7~9월에 정식하는 품종으로 숙기는 중조생종으로 평균과중 225 g 내외의 고구형의 완숙 대과종토마토이다. 경도가 강하여 저장성이 우수하고 과형이 정연하며, 착과가 안정되어 수량성이 높다. 또한 초세가 강하면서 이상줄기 발생이 적어 재배가 안정적인 품종이다.

토마토 과실의 숙성기간은 운송기간과 상품성에 상당한 영향을 미친다. 특히, 고온에서는 과실숙성이 빨라지므로, 숙성기간은 열대지방에 수출하는 토마토 품종에서 반드시 고려되어야 한다. 토마토 과실숙성을 효과적으로 차단하는 RIPENING-INHIBITOR (Rin) 유전자는 열성 유전하는 돌연변이체에서 보고되었고, 교잡후대(Rin/rin)에서는 숙성이 느리게 진행되어 저장성이 상당히 향상된다고 알려졌다. 따라서, 본 연구에서는 수출용 토마토 품종의 육성을 위해, 과실 숙성의 저해와 관련한 Rin 유전자 특이적인 분자 표지를 개발하고자 하였다. Rin과 rin유전자의 mRNA와 genomic DNA의 염기서열 정보를 확보하고 다형성을 나타내는 프라이머 조합을 선발하여, 공우성 SCAR 분자표지로 개발하였다. 토마토 육성 라인 24주에서 과실숙성 정도와 PCR밴드를 비교한 결과, 공우성 마커는 동형(Rin/Rin, rin/rin)과 이형(Rin/rin)의 유전자형을 구별하기에 적합하였으며 이를 이용하여 저장성이 좋은 토마토 품종개발에 도움이 될 것으로 기대한다.

Molecular genetic markers have been widely used as powerful tools for analyzing the genome. In particular, SSR markers have practical applications in breeding systems because they can be used in high-throughput analyses for genetic mapping, heritable diversity testing, purity analysis, and marker-assisted selection. Currently, due to technical advances in DNA sequencing, large sequence databases are available for large-scale SSR mining and marker development. Here, we describe an automated method, the SSR Finder program, for SSR discovery in the onion sequence database, and primer design for amplifying the detected SSRs. A total of 1,049 SSR primers were obtained for genetic purity testing, and 100 SSR sets were analyzed in 14 bulb onion breeding lines using clustering analysis. A total of 20 selected markers from screening of all 1,049 SSR primers, were finally applied for genetic purity testing in three breeding lines, NW1, NW9, and NW10. The initial tests showed that 15%, 71%, and 97% of individuals within NW1, NW9, and NW10, respectively, were genetically homogeneous. These markers produced using the SSR Finder will be useful for investigating the genetic purity of onion breeding lines.

ChiVMV is one of the most destructive pepper pathogens in the East Asia. The resistant cultivar against ChiVMV is necessary to control the ChiVMV infection to pepper farm. However, the genetic source resistant ChiVMV was not fully identified yet and until now, the only recessive resistance gene has been recognized. In order to study more on the inheritance of the resistance and to establish a breeding program pertinent to ChiVMV resistance, firstly, we screened about 30 lines from several foreign countries, and found a new resistant line from several inoculation tests. Here, we report a new dominantly resistant chili pepper. Secondly, we found two AFLP fragments linked to the dominant resistance, which was located on the pepper chromosome number 6. The newly discovered dominant markers will help develop a new resistant pepper cultivar to ChiVMV.