Single nucleotide polymorphism (SNP) is an abundant form of genetic variation within individuals of species. DNA polymorphism can arise throughout the whole genome at different frequencies in different species. SNP may cause phenotypic diversity among individuals, such as individuals with different color of plants or fruits, fruit size, ripening, flowering time adaptation, quality of crops, grain yields, or tolerance to various abiotic and biotic factors. SNP may result in changes in amino acids in the exon of a gene (asynonymous). SNP can also be silent (present in coding region but synonymous). It may simply occur in the noncoding regions without having any effect. SNP may influence the promoter activity for gene expression and finally produce functional protein through transcription. Therefore, the identification of functional SNP in genes and analysis of their effects on phenotype may lead to better understanding of their impact on gene function for varietal improvement. In this mini-review, we focused on evidences revealing the role of functional SNPs in genes and their phenotypic effects for the purpose of crop improvements.

DNA 염기서열 분석기술의 진보는 많은 근본적인 생명현상을 이해하는데 기여해왔다. 유례없는 저비용에 염기서열을 대량으로 분석을 할 수 있게 되어 단일 규모의 실험실에서도 관심이 있는 종의 신규유전체를 해독할 수 있다. 게다가 유전집단의 전체 염기서열을 편향되지 않은 채 분석하여 무수한 분자마커를 발굴할 수 있게 됨에 따라 집단유전학 연구도 두드러지게 가속화되어 왔다. 그러나 식물의 유전체가 이형접합성, 반복염기서열, 배수성과 같은 복잡한 특성이 있다는 것을 고려해 볼 때 기술이 매우 빠르게 진화함에 따라 적절한 개체 혹은 집단을 확보하는 것이 식물 연구에서 주요한 문제가 되었다. 이러한 난제는 오래되었지만 매우 효율적인 기술인 반수체 육성을 통하여 극복될 수 있을 것이다. 정상적인 개체가 갖는 염색체의 절반을 보유하는 반수체 식물은 주로 자방이나 화분과 같은 배우체 세포를 배양함으로써 빠르게 구축될 수 있다. 뒤이은 반수체 식물의 염색체 배수화는 완벽한 동형접합성을 보이는 안정된 배가반수체를 만든다. 본 논문에서는 반수체 식물을 육성하고 판별하기 위한 고전적인 방법론을 요약할 것이다. 게다가 동원체의 히스톤을 후성적으로 조절함으로써 반수체를 유도하는 방법을 설명할 것이다. 마지막으로, 유전체 시대에 반수체 식물의 활용 방안을 유전체 해독과 집단 유전학의 측면에서 논의할 것이다.

Remote sensing는 각종 센서를 이용하여 지표면, 물, 요소 기술에 대해 비접촉, 비파괴적인 방법으로 필요한 정보를 얻어내는 기술이다. 이들 기술은 센서 등의 요소 기술 뿐만 아니라, 센서를 탑재하는 플랫폼과 정보 통신 기술(ICT) 등을 복합적으로 이용한다. 특히 농업 분야에서는 ICT를 중개로 기상이나 토양 등의 환경 정보와 작물 정보를 측정하여 수치화하고 클라우드 컴퓨팅에 의해 생산 단계뿐만 아니라 유통 및 소비 단계까지 관리하는 스마트 농업에 크게 기여한다. 식물을 측정하기 위해서는 비파괴 비접촉 bioimaging (remote imaging)을 포함한 식물기능 remote sensing 기술개발이 필요하다. 또한 식물 과학 분야에서도 유전자 세포 수준에서 개체 수준까지를 대상으로 한 bioimaging 연구가 활발히 진행되고 있다. 최근 들어 표현형 연구를 통해 환경과 유전자형의 관계를 구명하는 phenomics 연구가 활발히 진행되고 있다. 따라서 본 논문에서는 식물기능 원격탐사의 기술동향, 식물진단 및 식물환경응답해석과 식물 phenomics 연구현황에 대해 고찰하였다.

Brassinosteroids (BRs) are essential plant steroid hormones required for cell elongation, plant growth, development and abiotic and biotic stress tolerance. BRs are recognized by BRI1 receptor kinase that is localized in the plasma membrane, and the BRI1 protein will eventually autophosphorylate in the intracellular domain and transphosphorylate BAK1, which is a co-receptor in Arabidopsis thaliana. However, little is known of the role OsBRI1 receptor kinase plays in Oryza sativa, monocotyledonous plants, compared to that in Arabidopsis thaliana, dicotyledonous plants. As such, we have studied OsBRI1 receptor kinase in vitro and in vivo with recombinant protein and transgenic plants, whose phenotypes were also investigated. A OsBRI1 cytoplasmic domain (CD) recombinant protein was induced in BL21 (DE3) E.coli cells with IPTG, and purified to obtain OsBRI1 recombinant protein. Based on Western blot analysis with phospho-specific pTyr and pThr antibodies, OsBRI1 recombinant protein and OsBRI1-Flag protein were phosphorylated on Threonine residue(s), however, not on Tyrosine residue(s), both in vitro and in vivo. This is particularly intriguing as AtBRI1 protein was phosphorylated on both Ser/Thr and Tyr residues. Also, the OsBRI1 full-length gene was expressed in, and rescued, bri1-5 mutants, such as is seen in normal wild-type plants where AtBRI1-Flag rescues bri1-5 mutant plants. Root growth in seedlings decreased in Ws2, AtBRI1, and 3 independent OsBRI1 transgenic seedlings and had an almost complete lack of response to brassinolide in the bri1-5 mutant. In conclusion, OsBRI1, an orthologous gene of AtBRI1, can mediate normal BR signaling for plant growth and development in Arabidopsis thaliana.

The transcriptional profiles of 'Tamnara' grapevine (Vitis labruscana L.) to Rhizobium vitis were determined using 12,000 gene oligonucleotide microarray chips constructed with 6,776 unigenes based on the EST sequencing. Among them, 95 clones were up-regulated more than three times and 90 were down-regulated more than 5-times in the R. vitis-inoculated grapevines relative to the control vines. Treatment of salicylic acid showed that 337 clones were upregulated and 52 clones were down regulated in grapevines. Microarray analysis, reverse transcription-polymer chain reaction, and slot blot hybridization analysis revealed that 5, 14, and 64 clones were up-regulated and 10, 12, and 61 clones were down-regulated in wounded, salicylic acid-treated, and R. vitis-inoculated 'Tamnara' grapevine leaves, respectively. The expression patterns of ${\beta}$-1,3-glucanase, proline-rich protein, and lipoxygenase genes of 'Tamnara' moderately resistant to R. vitis were similar to those of resistant 'Concord' and 'Delaware' grapevines. However, chalcone synthase genes in 'Tamnara' grapevines showed similar expression patterns to susceptible grapevines 'Neomuscat' and 'Rizamat'. Further expression studies with various clones for each gene should be conducted to elucidate their roles in resistant responses against pathogens or other stimuli in grapevines. These results could provide better resources for understanding the mechanism of defense responses against crown gall disease and clues for identifying new genes that may play a role in defense against R. vitis in grapevines.

We isolated and confirmed two S-RNases, denoted as mpS1 and mpS2, from apple rootstock 'Marubakaido' (Malus prunifolia Borkh. Var. ringo Asami). These S-RNases contained and conserved five cysteine residues and two histidine residues, which are essential for RNase activity. The mpS1 showed high similarity to S5 (99.1%) of Malus spectabilis, whereas the mpS2 showed 99.5% nucleotide sequence similarity to S26 of (Malus ${\times}$ domestica) and 99.6% to S35 of (Malus sieversii) when compared with reported S-RNases. In amino acid sequences, the mpS1-RNase was almost similar to the S5-RNase of Malus spectabilis, and the mpS2-RNase was similar to the S35 of Malus sieversii, with only one bp being different from the S26-RNase of Malus ${\times}$ domestica. The 57 S-RNases of Malus species were renamed and rearranged containing the new S-RNases, as mprpS35 (mpS2) and mprpS57 (mpS1), for determining S-genotypes and identifying new alleles from apple species (Malus spp.).

국내 멜론 및 박과채소 재배농가(안성, 이천, 영암, 창녕, 순천)에서 발병하고 있는 멜론 흰가루병균을 채집한 후 흰가루병균의 형태학적 특성을 이용한 종류 구분 및 멜론 race 판별계통을 이용한 국내에서 발병하고 있는 흰가루병균의 race를 확인하였다. 그 결과 국내 멜론 흰가루병균의 종류는 Podosphaera xanthii (syn. Sphaerotheca fuliginea)였으며, 기존에 보고된 race 1, N2, A와 판별결과가 일치하는 3 종류의 균주가 분리되었다. 또한 기존에 보고된 race (1, N1, N2, A, S, 5)와 검정 결과가 다른 새로운 race의 흰가루병균 2종이 동정되었다. 그리고 5개의 분리 및 동정된 흰가루병균을 이용하여 국내 시판중인 멜론 15품종에 대한 저항성을 조사한 결과, race1에 대해서는 15품종 중 9품종이 저항성을 보였다. Race N2와 A대해서는 소수의 품종에서 저항성을 보였으며, 새로운 race BN968에서는 15품종 모두가 이병성을 나타내었다. 또한 멜론 흰가루병 race 1 저항성 DNA 마커 KPMR1M-1과 KPMR1M-2에 의한 이병성 및 저항성 판별 결과와 race 1 접종 결과는 일치하였다. 따라서 국내 멜론 품종 육종에 있어서 다양한 race 특이적 마커 개발 및 이를 활용한 복합 race 저항성 품종 개발이 요구된다.

Agrobacterium-mediated gene transfer has recently been developed to improve rice transformation. In this study, 3 different transformation methods were tested including soaking, co-cultivation, and vacuum infiltration. Agrobacterium tumefaciens GV3101 harboring the binary vector pGreen:: LeGSNOR was used in this experiment. This study aimed to identify the most appropriate method for transferring LeGSNOR into rice. Vacuum infiltration of the embryonic calli for 5 min in Ilpum resulted in high transformation efficiency based on confirmation by PCR, RT-PCR, and qRT-PCR analyses. In conclusion, we described the development of an efficient transformation protocol for the stable integration of foreign genes into rice; furthermore, the study results confirmed that PCR is suitable for efficient detection of the integrated gene. The vacuum infiltration system is a potentially useful tool for future studies focusing on transferring important genes into rice seed calli, and may help reduce time and effort.

We performed a molecular marker-based analysis of quantitative trait loci for traits that determine the quality of appearance of grains using 120 doubled haploid lines developed by anther culture from the F1 cross between 'Cheongcheong' (Oryza sativa L. ssp. Indica) and 'Nagdong' (Oryza sativa L. ssp. Japonica). We therefore calculated the alkali digestion value (ADV), used to indirectly measure gelatinization temperature, to evaluate the quality of cooked rice in 2013 and 2014. The ADV score of frequency distribution was higher milled rice than brown rice. In total, nine different quantitative trait loci (QTLs) were found on 5 chromosomes in 2013 and 2014. Also, chromosome 5, 8 were detected over two years. We conclude that selected molecular markers from this QTL analysis could be exploited in future rice quality. In conclusion, we investigated ADV of brown and milled rice in CNDH population. This study found nine QTLs related to the ADV of brown and milled rice. The detected one marker can be used to select lines with desirable eating-quality traits because ADV is closely associated with the eating quality of cooked rice. Therefore, it will be useful to collect resources and distinguishable in many varieties for rice breeding program.

한국에 분포하는 두릅나무과 식물 대부분은 중요한 약용 식물로 경제적인 가치가 크다. 본 연구는 분자적 방법인 엽록체 DNA 바코드 염기서열 분석을 통해 한국에 자생하고 있는 두릅나무과 식물 14종 전체의 속 및 종간 유연관계를 파악해 보고 이를 구별할 수 있는 마커를 개발하기 위해 수행되었다. 국제 생물 DNA 바코드 컨소시엄(CBOL, the Consortium for the Barcode of Life)이 DNA barcoding marker로 제안한 엽록체 DNA 7영역의 염기서열을 분석한 결과, psbA-trnH영역에서 가장 많은 삽입, 결실 및 염기치환이 나타났으며 조사된 한국의 두릅나무과 식물 14종 모두 구분 될 수 있었다. 또한 각각의 영역에서 특정 속과 종만이 지니는 특이적인 염기서열을 찾을 수 있었다. 인삼의 경우 중국삼과 한국삼의 염기서열에는 차이가 전혀 없었다. 7영역을 모두 유합하여 작성한 계통수에서는 통탈목이 특이성을 나타내며 가장 기부에 분계조를 형성하였다. 두릅나무속과 인삼속은 자매군을 형성하였고, 오갈피속 5 종 역시 서로 높은 유연관계를 나타내었다. 결론적으로 한국에 자생하는 14종의 두릅나무과 식물들이 모두 엽록체 DNA 바코드 마커 개발을 통해 동정이 가능함을 확인하였다.

면화(cotton)는 섬유를 수확하고, 면실유는 식용으로 가공 후 남은 것은 다시 사료로 이용되어 다방면으로 다양하게 활용되는 작물이다. LM 면화는 옥수수, 대두, 캐놀라와 달리 아시아권(중국, 인도 등)에서 가장 많이 재배되고 있으며, 우리나라는 2013년까지 세계 1위의 LM 면실(사료용) 수입국이며, 세계 4위의 면실박 수입국으로 해마다 증가하는 LM 면화의 수입량과 맞물려 유통 및 소비과정에서의 비의도적으로 유출 가능성이 증가함에 따라 LM 면화의 자연생태계 위해성 평가 및 안전관리가 요구된다. 본 연구에서는 국내 수입 승인 LM 면화 6개 이벤트(MON15985, MON531, GHB614, LLCOTTON25, MON88913, MON1445)의 동시증폭 검출법(multiplex PCR)을 개발하여 보다 신속하고 명확한 검출기법을 확립하고자 하였다. 최적 multiplex PCR 반응 조건은 2개 LM 면화 이벤트 MON15985 (214 bp), MON531 (270 bp)와 4개 LM 면화 이벤트 GHB614 (119 bp), LLCOTTON25 (164 bp), MON88913 (276 bp), MON1445 (389 bp)가 한번의 반응에 명확하게 검출되는 최적 반응 조건 및 primer 반응 농도의 조절을 통해 서로 다른 생성물 크기로 명확히 구분되도록 하였고, 최적 primer 농도는 반응액 최종농도 0.2~0.66 pmol로 primer 쌍 마다 각각 다른 최적 농도 조합의 cocktail을 만들어 활용하였다. Duplex PCR 반응 조건은 초기 $95^{\circ}C$ 5분 반응 후, $95^{\circ}C$ 15초, $55^{\circ}C$ 20초 15회 반응하고, 다시 $95^{\circ}C$ 15초, $60^{\circ}C$ 20초 25회 반응하였을 때 최적 검출이 이루어졌고, tetraplex PCR 반응 조건은 $95^{\circ}C$ 5분 반응 후, $95^{\circ}C$ 15초, $60^{\circ}C$ 20초 50회 반응하였을 때 최적 검출이 이루어졌다. 본 연구에서 개발된 multiplex PCR 검출법은 국내 수입 유통 LM 면화의 자연환경 모니터링에 활용함에 있어 요구되는 연구인력, 시간 및 비용을 보다 효율적으로 개선하는데 적용될 수 있을 것으로 사료된다.

고려인삼은 다년생 약용작물로써 재배 특성상 인삼에서 다양한 질병들의 효과적인 방제시스템의 개발은 인삼의 생산량 증대에 매우 중요한 요소이다. 최근 지속가능한 농업의 실현을 위한 식물의 유도저항성(ISR)과 유용미생물의 항생제 효과를 이용한 친환경 생물학적 방제 기법이 주목을 받고 있다. 하지만 인삼의 유도정항성을 정확하게 판단할 수 있는 기법은 아직까지 거의 연구되어 있지 않다. 본 논문에서는 인삼의 유묘를 이용한 무병주 기내배양 시스템을 개발하였고, BTH에 의해 유도되는 인삼의 유도저항성을 통한 잿빛곰팡이병과 탄저병에 대한 방제효과를 검증하였다. 인삼유묘에 유도저항성을 위해 뿌리에 직접적으로 BTH를 처리하는 관주처리 방법에 비해, 잎에 직접적으로 살포하는 엽면시비 방법이 효과적으로 두 곰팡이성 병원균에 대한 방제효과가 높게 나타났다. BTH처리 인삼유묘에 탄저병원균을 처리하였을 때 인삼의 병원균 침입에 의해 급격히 발현이 증대되는 PgPR10과 PgCAT 유전자의 발현이 급속하게 증대되는 현상을 확인하였다. 본 연구를 통해 개발된 시스템은 향후 친환경적으로 이용될 수 있는 다양한 생물학적 방제제의 효과를 검정하고 활용하는데 매우 유용하게 이용될 수 있을 것이다.

Rosa rugosa is a medicinal, ornamental, and edible plant native to Eastern Asian countries, including Korea, Japan, and China. The aim of this study was to establish a system for biomass production and secondary metabolite accumulation during in vitro culture and acclimatization of Rosa rugosa. The highest rate of multiple shoot proliferation was achieved with $8.8{\mu}M$ benzyladenine (BA) (83.3%). However, the number of shoots (14.4 per explant) at $4.4{\mu}M$ BA was higher than that at $8.8{\mu}M$ BA. Compared to BA, a combination of thidiazuron (TDZ) and indole butyric acid (IBA) exhibited significantly lower shoot induction, with only 50.0~79.2% and 4.2~16.7% relative shoot formation, respectively. During acclimatization, shoots were sampled every week and their total phenolic contents were analyzed. Among various growth factors, fresh weight showed the most dramatic increase from the 3rd week (88.0 mg/plant) to 4th week (132.7 mg/plant). Total phenolics and flavonoids contents were the highest at $1^{st}$ week of acclimatization. Depending on developmental stages, total phenolics and flavonoids contents were higher in 1-yr-old shoots grown ex vitro than in those of older field-grown or in vitro-grown plants. Amongst different ages of field grown plants, 6-year-old plants, the oldest in this study, showed the lowest content in total phenolics.

We compared germination efficiency for somatic embryos (SE) of Liriodendron tulipifera using semi-solid (SS), temporary immersion bioreactors (TIB), and continuous immersion bioreactors (CIB) to produce vigorous plants. The bioreactors were designed to be immersed in liquid media with plantlets with an adjustable immersion time. TIB and CIB improved germination rates up to 80.86% and 95.21%, respectively, however, CIB produced more hyperhydric plantlets than TIB. The height of plantlets in TIB was significantly higher than for those in CIB. Fresh weights of plantlets grown in CIB of were significantly lower than for those grown in TIB. The lowest chlorophyll concentration was found in in vitro plantlets from CIB. We examined abnormally developed leaves, stems, and apical zones of in vitro plantlets that were produced in CIB. Among the three types, SS showed the highest stomatal density and the shortest stomatal length in in vitro plantlets. After acclimatization, plants from CIB exhibited the lowest values in biomass, such as height, root collar diameter, leaf fresh weight, leaf length, leaf width, petiole length, petiole diameter, and leaf area. Photosynthesis and transpiration rates of ex vitro plants were not significantly different among the three culture types, but stomatal conductance was higher in TIB than in the SS and CIB. Therefore, the results suggest that TIB is the preferable bioreactor to improve in vitro plantlet regeneration of L. tulipifera. TIB-originated plants showed higher growth rate than SS and CIB after transferring to soil.

Anthocyanin accumulation and plant growth were examined in petunia (NT and $T_2$ transgenic plants) by determining the effects of different sources of light and varying light/dark cycles. Red light significantly enhanced anthocyanin content of B-peru+mPAP1; however, it had a negative effect on anthocyanin production in RsMYB1 plants. In general, white light was found to be reasonable for anthocyanin accumulation in all plants. In case of light/dark cycles, application of seven days of light:14 days of dark significantly enhanced anthocyanin content. We found that anthocyanin content detected in transgenic plants expressing anthocyanin regulatory transcription factor genes (B-peru+mPAP1 or RsMYB1) was higher than that in NT plants in all treatments. Plant growth was also influenced by the different light sources and dark/light cycles. Taken together, our results suggest that light source and light/dark cycle play an important role in anthocyanin production and plant growth. The choice of the optimal conditions is also important for anthocyanin production and plant growth depending on NT or transgenic plants carrying anthocyanin regulatory transcription factors.

Pueraria lobata is a perennial legume plant that produces a variety of isoflavones, such as puerarin, daidzin and daidzein. These are metabolized to equol via dihydrodaidzein and tetrahydrodaidzein by the bacterial fermentation of natural isoflavone sources in the human intestines. In this study, we described the growth and accumulation of isoflavone in the hairy root of the Korean wild arrowroot according to the culture period, as well as dihydrodaidzein biosynthesis in hairy root extracts fermented with Pediococcus pentosaceus. Daily proliferation was best in DY1 cultured for 1 week. DY1 showed significant differences in daily production of puerarin and daidzin+daidzein, as compared to DJ7; furthermore, both were best in DY1 cultured for 1 week. The hairy root extract was fermented successfully with P. pentosaceus with confirmed production of dihydrodaidzein, an equol precursor formed by biotransformation. The results indicated that the growth of hairy roots and isoflavone accumulation in the hairy roots is best 1 week after culture. These results are expected to contribute to the mass production of hairy root and isoflavones as equol precursors from the Korean wild arrowroot and provide a basis for equol production by biotransformation in vitro.

The genus Cypripedium, known as lady's slipper orchid, has been considered to have a considerable marketability as a potted and garden plant with beautiful flowers; however, this species is becoming endangered and, in some places extinct, due to habitat destruction and illegal collections. As such, an optimized artificial propagation system is necessary for its conservation and horticultural cultivation. For the establishment of the in vitro proliferation of the endangered Cypripedium macranthos Sw., native to Korea, the effects of medium strength and sucrose concentrations on germination, protocorm formation and seedling growth were investigated through asymbiotic seed culture. The highest germination rate and protocorm formation rate were obtained with a 1/4 MS medium; higher MS medium strengths did not generate the favorable conditions required for germination and protocorm growth. The overall growth characteristics of roots and buds developed from protocorms were best in cultures of 1/4 MS medium. On this medium containing $10g{\cdot}L^{-1}$ sucrose, both the germination rate and protocorm formation rate increased significantly. The general growth properties of seedlings developed on the medium with $10g{\cdot}L^{-1}$ sucrose were best, showing the highest bud formation rate and root number. Our results demonstrate that the 1/4 MS medium, supplemented with $10g{\cdot}L^{-1}$ sucrose, could improve in vitro germination, and facilitate the growth of seedlings developed from the protocorms of C. macranthos Sw.

To find the optimal propagation condition for endangered Cypripedium macranthos Sw., also known as lady's slipper orchid, the effect of various organic additives on in vitro germination, protocorm formation and seedling growth was investigated during asymbiotic seed culture. When $100ml{\cdot}L^{-1}$ coconut water was added to the basal medium, the highest germination rate and protocorm formation rate were achieved, with 70.8% and 74.2% respectively. Supplementation of phloem sap from birch tree or maple tree also showed a facilitating effect to improve the germination and protocorm development. With $100ml{\cdot}L^{-1}$ birch sap or maple sap, both the germination and protocorm formation rates were roughly more than 65% and 68%. The roots and buds of the seedlings grew vigorously in the medium containing $100ml{\cdot}L^{-1}$ coconut water or phloem sap, in particular, their bud formation rates increased by more than 70%. Addition of banana powder and peptone could not create a more significantly favorable culture condition, and non-addition had the worst results. Our results demonstrated that proper organic amendments such as coconut water and phloem sap might be preferred to in vitro germination and the growth of seedlings developed from the protocorm of C. macranthos Sw. during asymbiotic seed culture.