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[PB-0006] A novel resistance gene for bakanae disease in rice, qBK4T identified by GWAS
Sais-Beul Lee(Sais-Beul Lee),Ju-Won Kang(Ju-Won Kang),Ji-Yoon Lee(Ji-Yoon Lee),Nkulu Rolly Kabange(Nkulu Rolly Kabange ),Hyunggon Mang(Hyunggon Mang),Yeongho Kwon(Yeongho Kwon),Gi-Un Seong(Gi-Un Seong 한국육종학회 2022 한국육종학회 공동학술발표집 Vol.2022 No.-
[PB-0007] Gene integration approach detected QTLs Associated with Bakanae disease resistance in rice
Sais-Beul Lee(Sais-Beul Lee),Hyunggon Mang(Hyunggon Mang),Ju-Won Kang(Ju-Won Kang),Ji-Yoon Lee(Ji-Yoon Lee),Nkulu Rolly Kabange(Nkulu Rolly Kabange ),Yeongho Kwon(Yeongho Kwon),Gi-Un Seong(Gi-Un Seong 한국육종학회 2022 한국육종학회 공동학술발표집 Vol.2022 No.-
The genes pyramiding of bakanae disease resistance gene, qBK1 and qFfR1, in rice
Sais-Beul Lee,Su-Min Jo,Nkulu Rolly Kabange,Ji-Yoon Lee,Yeong-Ho Kwon,Ju-Won Kang,Dong-jin Shin,Jong-Hee Lee,You-Chun Song,Jun-Hyeon Cho,Jong-Min Ko,Kyung-Min Kim,Dong-Soo Park 한국국제농업개발학회 2020 한국국제농업개발학회 학술대회 Vol.2020 No.12
Fine mapping of <i>qBK1</i> , a major QTL for bakanae disease resistance in rice
Lee, Sais-Beul,Kim, Namgyu,Hur, Yeon-Jae,Cho, Su-Min,Kim, Tae-Heon,Lee, Ji-youn,Cho, Jun-Hyeon,Lee, Jong-Hee,Song, You-Chun,Seo, Young-Su,Ko, Jong-Min,Park, Dong-Soo Springer US 2019 Rice Vol.12 No.-
<P><B>Background</B></P><P>Bakanae disease is an important fungal disease caused by <I>Gibberella fujikuroi</I>. Incidence of rice bakanae disease creates serious problems in the foremost rice growing countries, and no rice variety has been found to be completely resistant to this disease. However, breeding rice varieties resistant to bakanae disease may be a cost-saving solution preferable to the application of fungicides. In this study, we aimed to determine the exact position and the candidate gene for <I>qBK1</I>, a major resistant quantitative trait locus (QTLs) for bakanae disease.</P><P><B>Results</B></P><P>The genotypes/phenotypes of recombinants selected from backcrossed recombinant inbred lines of two rice varieties, Shingwang (resistant) and Ilpum (susceptible), indicated that the locus <I>qBK1</I>, conferring resistance to bakanae disease in Shingwang, was delimited to a 35-kb interval delimited by InDel 18 (23.637 Mbp) and InDel 19–14 (23.672 Mbp). Sequence analysis of this 35-kb region revealed four candidate genes, LOC_Os01g41770, LOC_Os01g41780, LOC_Os01g41790, and LOC_Os01g41800. There were many non-synonymous SNPs in LOC_Os01g41770 and the transcript of LOC_Os01g41790 was early terminated in Shingwang, whereas there were no differences in both LOC_Os01g41780 and LOC_Os01g41800 sequences between Ilpum and Shingwang. Expression profiling of the four candidate genes showed the up-regulation of LOC_Os01g41770, LOC_Os01g41780, and LOC_Os01g41790 in Ilpum and of LOC_Os01g41800 in Shingwang after inoculation of <I>G. fujikuroi.</I></P><P><B>Conclusion</B></P><P>Utilization of marker-assisted selection (MAS) with a precise molecular marker on <I>qBK1</I> could provide an effective tool for breeding rice varieties resistant to bakanae disease. To our knowledge, this is the first report on fine mapping and candidate gene approaches for identifying the gene for <I>qBK1</I>.</P><P><B>Electronic supplementary material</B></P><P>The online version of this article (10.1186/s12284-019-0295-9) contains supplementary material, which is available to authorized users.</P>
Lee, Sais-Beul,Hur, Yeon-Jae,Cho, Jun-Hyeon,Lee, Jong-Hee,Kim, Tae-Heon,Cho, Soo-Min,Song, You-Chun,Seo, Young-Su,Lee, Jungkwan,Kim, Tae-sung,Park, Yong-Jin,Oh, Myung-Kyu,Park, Dong-Soo Springer US 2018 Rice Vol.11 No.-
<P><B>Background</B></P><P>Bakanae or foot rot disease is a prominent disease of rice caused by <I>Gibberella fujikuroi</I>. This disease may infect rice plants from the pre-emergence stage to the mature stage. In recent years, raising rice seedlings in seed boxes for mechanical transplanting has increased the incidence of many seedling diseases; only a few rice varieties have been reported to exhibit resistance to bakanae disease. In this study, we attempted to identify quantitative trait loci (QTLs) conferring bakanae disease resistance from the highly resistant <I>japonica</I> variety Wonseadaesoo.</P><P><B>Results</B></P><P>A primary QTL study using the genotypes/phenotypes of the recombinant inbred lines (RILs) indicated that the locus <I>qBK1</I><SUP><I>WD</I></SUP> conferring resistance to bakanae disease from Wonseadaesoo was located in a 1.59 Mb interval delimited on the physical map between chr01_13542347 (13.54 Mb) and chr01_15132528 (15.13 Mb). The log of odds (LOD) score of <I>qBK1</I><SUP><I>WD</I></SUP> was 8.29, accounting for 20.2% of the total phenotypic variation. We further identified a gene pyramiding effect of two QTLs, <I>qBK</I><SUP><I>WD</I></SUP> and previously developed <I>qBK1</I>. The mean proportion of healthy plant for 31 F<SUB>4</SUB> RILs that had no resistance genes was 35.3%, which was similar to that of the susceptible check variety Ilpum. The proportion of healthy plants for the lines with only <I>qBK</I><SUP><I>WD</I></SUP> or <I>qBK1</I> was 66.1% and 55.5%, respectively, which was significantly higher than that of the lines without resistance genes and that of Ilpum. The mean proportion of the healthy plant for 15 F<SUB>4</SUB> RILs harboring both <I>qBK</I><SUP><I>WD</I></SUP> and <I>qBK1</I> was 80.2%, which was significantly higher than that of the lines with only <I>qBK</I><SUP><I>WD</I></SUP> or <I>qBK1</I>.</P><P><B>Conclusion</B></P><P>Introducing <I>qBK</I><SUP><I>WD</I></SUP> or pyramiding the QTLs <I>qBK</I><SUP><I>WD</I></SUP> and <I>qBK1</I> could provide effective tools for breeding rice with bakanae disease resistance. To our knowledge, this is the first report on a gene pyramiding effect that provides higher resistance against bakanae disease.</P><P><B>Electronic supplementary material</B></P><P>The online version of this article (10.1186/s12284-017-0197-7) contains supplementary material, which is available to authorized users.</P>
Maurene Bombay,Sais-Beul Lee,Myrish Pacleb,Sumin Jo,Ji-Youn Lee,Jun-Hyeon Cho,Jong-Hee Lee,Ju-Won Kang,Sung-Ryul Kim,Jae-Sung Lee,Il-Ryong Choi,Jeom-Ho Lee,Jong-Min Ko,Dong-Soo Park 한국국제농업개발학회 2021 韓國國際農業開發學會誌 Vol.33 No.2
인디카 벼는 일조시간이 짧은 열대지역에서 주로 재배하며, 자포니카 벼는 일조시간이 긴 한국, 일본, 및 중국(동북부 지역)을 포함하는 온대지역에서 재배한다. 최근 동남아 열대지역에서 자포니카 쌀에 대한 수요가 증가함에 따라 농촌진흥청은 필리핀 국제미작연구소(IRRI)와 공동으로 열대지역에 적응하는 다수성 온대 자포니카 벼 품종을 개발하고 있다. 일반적으로 자포니카 벼를 단일조건인 열대지역에 재배하면 이앙 후 바로 개화가 촉진되어 극조기 출수가 유도된다. 따라서 열대지역에 적응하는 자포니카 벼를 개발하기 위해서는 단일조건에서도 충분히 생장한 후 출수를 하는 특성이 우선적으로 필요하다. 본 연구는 국내 자포니카형 벼 품종인 ‘일품’과 미국에서 육성한 인디카형 벼인 ‘Zenith’를 교배한 F9 RIL 180 계통을 이용하여 필리핀의 단일조건하에서 재배하면서 출수기에 관련한 양적형질유전자좌(QTL) 분석을 수행한 바, 그 결과는 다음 과 같다. 1. 단일조건하에서 출수일수(파종~출수)에 관여하는 2종의 QTL(qHD6-SD와 qHD6-LD)을 탐색하였다. 2. 정밀지도제작 결과 qHD6-SD와 qHD6-LD은 모두 6번 염색체 Hd1 유전자를 포함하는 98 kb 영역에 존재하는 동일한 QTL인 것으로 나타났다 3. 시험계통을 필리핀 단일 조건에서 재배하였을 때 qHD6- SD 또는 qHD6-LD에서 Zenith allele형을 보유한 계통들은 일 품 allele형을 가진 계통들 보다 출수일수가 평균 8일 정도 길었다. 3. 시험계통을 한국의 장일 조건에서 재배하였을 때 qHD6- SD 또는 qHD6-LD에서 Zenith allele형을 보유한 계통들은 일품 allele형을 가진 계통들보다 출수일수가 평균 8일 정도 짧 았다. 4. 이러한 특성은 기존에 보고된 Hd1 유전자의 특성과 유사하여 qHD6-SD 및 qHD6-LD 은 Hd1 유전자일 가능성이 높은 것으로 나타났으며, 본 시험에서 사용한 Zenith는 nonfunctional Hd1 allele을 보유하는 것으로 추정되었다. 5. 이러한 결과를 통해 열대지역에 적응하는 자포니카 벼 육종연구에서 극조기 출수를 방지하고 충분한 출수일수를 확보하여 수량을 높이기 위해서는 인디카 벼가 주로 보유하고 있는 non-functional Hd1 allele을 반드시 도입해야 함을 재확인 하였다. In the tropics (Southeast Asian countries), indica rice is more common than japonica. Japonica rice is mainly cultivated in temperate regions, including Korea, Japan, and China (northeast regions) due to its poor adaptation to tropical areas. To develop tropically-adapted high-yielding japonica rice, breeders should overcome the challenges, including extremely early flowering, low biomass accumulation, and inferior panicle traits. This study investigated 180 F9 recombinant inbred lines (RILs) developed from a cross between Ilpum (temperate japonica) and Zenith (indica) as a case population to identify quantitative trait loci (QTLs) that influence the said traits. Here we identified two major QTLs, qHD6-SD and qHD6- LD, conferring days to heading under short day (SD) and long day (LD) conditions, respectively. Finer mapping revealed that both qHD6-SD and qHD6-LD located in the similar 98 kb region harbored the Hd1 gene. Days to heading in the RILs harboring the Zenith allele type of qHD6-SD under SD conditions were significantly longer than those in the RILs harboring the Ilpum allele type. On the contrary, days to heading in the RILs harboring the Zenith allele type of qHD6-SD under LD conditions were significantly shorter than those in the RILs harboring the Ilpum allele type. This bi-functionality of qHD6-SD upon heading strongly support the claim that both qHD6-SD and qHD6-LD might be the Hd1 gene. Our findings further support the claim that the functional allele type of Hd1 gene delays long-day heading and promotes extremely early short-day heading. Therefore, a non-functional Hd1 type is critical to tropical adaptation of japonica rice since it delays the heading date, which is essential to attain prolonged vegetative state in order to achieve optimum biomass, increased spikelet number, and grain filling capacity.