天宫二号航天蚕后代小茧突变体sc的发现与基因定位

【目的】从2016年天宫二号空间实验室经历33 d后返回的1头成活“秋丰×白玉”杂交后代雌蚕Bombyx mori与地面“白玉”雄蚕交配的后代个体中,发现有结小茧突变体,进而分离并建立了飞天蚕(space silkworm)正常茧品系TG和小茧突变体品系sc。本研究通过对sc进行遗传分析和基因定位,旨在揭示产生小茧突变体的基因。【方法】对TG和sc进行表型分析;以sc, TG和正常大茧品系0223V1为试验材料,组配(sc♀×0223V1♂)F₁及回交群体BC₁F——(sc♀×0223V1♂)F₁♀×sc♂和BC₁M——sc♀×(sc♀×0223V1♂)F₁♂。以sc, 0223V1和F₁基因组DNA为模板,每个连锁群随机选10个SSR引物进行PCR扩增,筛选多态性SSR标记。利用雌性家蚕减数分裂染色体不交换的特点,用BC₁F确定sc基因所属连锁群;再根据家蚕SSR分子标记连锁图谱,用BC1M进行基因定位。【结果】表型分析表明sc幼虫体型小于TG幼虫的,蚕茧重约为TG的1/2。遗传分析表明突变受一对隐性基因sc控制;基因定位结果表明该基因位于家蚕基因组第3连锁群S2930-363和S2930-289 SSR标记之间,物理距离为684 kb,包含33个候选基因。【结论】飞天蚕小茧突变受位于家蚕基因组第3连锁群的一对隐性基因sc控制。     

对家蚕第18连锁群隐性基因elp、ch-2和mln测交系的分子定位分析

家蚕长形卵(elp)、第二隐性赤蚁(ch-2)、暗化型(mln)均为第18染色体上的隐性突变, 在经典连锁图谱上的顺序和遗传距离已经排定。文章采用正常卵、正常黑蚁及正常白蛾品种P50与包含此3个隐性突变的三隐性测交系W18组配正反交群体, F1回交W18后获得回交群体(P50×W18)♀×W18♂ 和W18♀×(P50×W18)♂, 分别记作BC1F和BC1M, 利用已构建的家蚕SSR分子连锁图谱和根据家蚕基因组精细图设计的STS标记, 对这3个突变基因elp、ch-2、mln进行了分子定位研究, 并根据家蚕基因组精细图, 将第18连锁群的经典遗传图、分子连锁图和基因组物理图进行了对应。整合后的图谱遗传距离为94.2 cM, 突变基因和分子标记的排列顺序分别与形态标记连锁图和基因组精细图相一致, 研究结果对家蚕第18 染色体上其他突变的定位与克隆有重要的借鉴作用。     

家蚕黄血抑制基因的SSR定位

家蚕黄茧性状主要由3个基因控制, 分别是黄血基因(Yellow blood, Y), 黄血抑制基因(Yellow inhibitor, I)和黄茧基因(Out-layer yellow cocoon, C)。I基因阻止类胡萝卜素从中肠上皮细胞到血淋巴的转运, 是天然黄茧形成过程中的重要控制基因。利用家蚕雌性不发生交换的特点, 采用黄血黄茧品系KY和白血白茧品系巴格达特(Ba)组配正反交群体(Ba×KY)×KY和KY×(Ba×KY), 分别记作BC1F和BC1M, 根据已经构建的家蚕SSR分子标记连锁图谱对I基因进行了定位及连锁分析。筛选出3个与I基因连锁的SSR标记。BC1F群中的所有白血个体均表现出与(Ba×KY) F1相同的杂合型带型; 而所有黄血个体带型与亲本KY一致, 为纯合型。利用另一个群体BC1M构建了关于I基因的遗传连锁图, 连锁图的遗传距离为38.4 cM, 与I基因最近的引物为S0904, 图距为7.4 cM。     

家蚕高密度AFLP连锁图谱的构建

为了进行家蚕Bombyx mori数量性状的QTL定位研究,以白色茧系品种C₁₀₀ (♀)和近交系大造(P50)(♂)杂交得到F₁,用F₁(♂)与双隐性标记的C₁₀₀ (♀)回交,得到回交一代(BC₁),用改进的AFLP分子标记方法,经96组选择性扩增引物扩增,获得分离比为1∶1(P≤0.05)的1 744个AFLP位点。用Map Manager QTXb19（Version 0.29）连锁图谱构建软件,构建了具有814个标记,36个连锁群的家蚕高密度AFLP分子标记连锁图谱。该连锁图谱覆盖的家蚕基因组长度为13 005 cM,连锁群长度变化范围为109.0～1 573.7 cM,连锁群的平均长度为361.25 cM,其标记间平均图距15.98 cM,最小图距2.3 cM,最大图距47.7 cM,标记间大于30 cM的gap共有39个。该连锁图平均每个连锁群23个标记,最多一个连锁群有92个标记,最少8个标记。该连锁图谱确定了与经典实验遗传图谱第15连锁群和W染色体连锁群相对应的两个连锁群。     

用AFLP标记快速构建遗传连锁图谱并定位一个新基因tms5

报导了一个分子标记连锁图的快速构建方法.通过对水稻(Oryza sativa L.)"安农S-1"和"南京11"的F2分离群体的AFLP分析找到了142个AFLP标记,用这142个AFLP标记以及已定位的25个SSR标记和5个RFLP标记构建了水稻12个染色体的分子标记连锁图,该图覆盖水稻基因组的1 537.4 cM,相邻标记间的平均间距为9.0 cM,这是在国内建立的第一张AFLP标记连锁图.在建立连锁图谱的同时把一个新基因tms5 (水稻温敏核不育基因)定位在第2染色体上.     

家蚕性连锁平衡致死系致死基因的SSR定位

家蚕性连锁平衡致死系(S-14)雄蚕的两条Z染色体分别携带有一个非等位、紧密连锁的隐性胚胎期致死基因l1(lethal gene1)和l2(lethal gene2)。两个致死基因的致死时期分别是转青期和G2期。将S-14品系的雄蚕和家蚕P50品系的野生型雌蚕杂交,F1代雄蚕和P50品系雌蚕回交,即P50×(P50×S14)。回交后代雌蛾根据父本(F1代雄蚕)携带l1或l2基因分成两类BC1-l1和BC1-l2,分别用来做l1和l2基因定位。利用公布的家蚕全基因组序列筛选l1基因和l2基因所在Z染色体与P50品系Z染色体间的差异SSR标记,分别获得16个和18个差异性SSR标记,用差异性标记检测BC1-l1和BC1-l2,最终将l1基因定位在Z染色体物理图谱中的19.79Mb位点到染色体末端约2.60Mb范围内,将l2基因定位在Z染色体物理图谱的17.86Mb位点到18.55Mb位点约0.69Mb范围内。     

用AFLP标记快速构建遗传连锁图谱并定位一个新基因tms5

报导了一个分子标记连锁图的快速构建方法。通过对水稻(Oryza sativa L．)“安农S-1”和“南京11”的F2分离群体的AFLP分析找到了142个AFLP标记,用这142个AFLP标记以及已定位的25个SSR标记和5个RFIP标记构建了水稻12个染色体的分子标记连锁图,该图覆盖水稻基因组的1537．4cM,相邻标记间的平均间距为9．0cM,这是在国内建立的第一张AFLP标记连锁图。在建立连锁图谱的同时把一个新基因tms5(水稻温敏核不育基因)定位在第2染色体上。     

人工合成小麦抗白粉病未知基因的SSR标记

YAV-2/TEZ//A.SQ(895)是硬粒小麦与粗山羊草杂交获得的抗白粉病人工合成小麦。本研究利用人工合成小麦YAV-2/TEZ//A.SQ(895)与感白粉病的普通小麦品系品资50098杂交和自交获得的F2代群体及F3家系,在温室条件下鉴定群体的白粉病抗性。遗传分析结果表明,该抗白粉病基因为显性单基因遗传。利用647对小麦SSR引物进行了白粉病抗性基因的分子标记分析,结果表明该白粉病抗性基因与2A染色体的6个SSR标记连锁,与标记Xcfa2086的遗传距离最近,为11.8cM。     

玉米隐性核不育突变体ms14的遗传分析与基因定位

玉米雄性不育材料是一种宝贵的种质资源,不育基因的遗传分析与定位研究对玉米分子育种和杂种优势利用具有重要价值。通过对从美国引进的玉米雄性不育突变体材料ms14进行雄花育性鉴定和花药I₂-KI染色,表明该突变体是无花粉型雄性不育;通过不育突变体ms14与正常自交系郑58、昌7-2杂交获得F₁,然后自交构建两个F₂遗传分离群体（ms14×郑58和ms14×昌7-2）,并进行雄花育性调查、数据统计和遗传分析,发现可育株数与不育株数的分离比是3∶1,表明该突变体由隐性单基因控制;通过SSR等分子标记与不育位点的连锁分析,将ms14基因定位在玉米第1染色体的SSR标记umc2025和umc1676之间,遗传距离分别是2.2cM和0.3cM。对玉米不育基因ms14的遗传分析和初步定位,为该基因的精细定位和克隆、不育机理的解析及其产业化应用奠定了基础。     

水稻抗白叶枯病基因Xa12区间连锁图的构建

利用SSR标记对143株Java14/珍珠矮F₂随机群体进行分析,构建了水稻第4染色体上抗白叶枯病基因Xa12高饱和度的SSR标记区间连锁图。该分子图谱整合了SSR标记RM349、RM348、RM255、MRG4611,为进一步利用SSR标记在Java14/珍珠矮F₂群体中精细定位Xa12以及克隆该基因奠定了基础。     

SSR based linkage and mapping analysis of C,a yellow cocoon gene in the silkworm,Bombyx mori

The yellow color of the cocoon of the silkworm Bombyx mori is controlled by three genes, Y (Yellow haemolymph), I (Yellow inhibitor) and C (Outer‐layer yellow cocoon), which are located on linkage groups 2, 9 and 12, respectively. Taking advantage of a lack of crossing over in females, reciprocal backcrossed F₁ (BC₁) progeny were used for linkage analysis and mapping of the C gene using silkworm strains C108 and KY, which spin white and yellow cocoons, respectively. DNA was extracted from individual pupae and analyzed for simple sequence repeat (SSR) markers. The C gene was found to be linked to seven SSR markers. All the yellow cocoon individuals from a female heterozygous backcross (BC₁ F) showed a heterozygous profile for SSR markers on linkage group 12, whereas individuals with light yellow cocoons showed the homozygous profile of the strain C108. Using a reciprocal heterozygous male backcross (BC₁ M), we constructed a linkage map of 36.4 cM with the C gene located at the distal end, and the closest SSR marker at a distance of 13.9 cM.     

Loss of C-genome-specific markers during transgene introgression from Brassica napus to wild Brassica juncea

Transgene flow from engineered Brassica napus to wild weed relatives could potentially have an environmental effect. To evaluate the introgression of transgenic B. napus into wild Brassica juncea, the hybrid F₁ and backcross progenies derived from B. juncea (genome constitution AABB) and transgenic B. napus (AACC) crosses were investigated. C-genome-specific simple sequence repeat (SSR) markers corresponding to linkage groups N11–N19 in B. napus were screened and used to estimate the marker frequency in hybrid F₁ and backcross progenies. C-genome-specific markers could be stably detected in hybrid F₁ and backcross BC₁ plants, but were only rarely found in the BC₂–BC₅ generations. For example, a specific SSR marker for linkage group N12 segregated in BC₂ generation but were completely lost in BC₃–BC₅, while a specific SSR marker of linkage group N15 segregated in BC₁, BC₂ and BC₃ generations and was absent in more advanced backcrossed generations (BC₄ and BC₅). The results indicate that a certain gene regions in Brassica napus plants are transmitted at a relatively lower frequency to wild relatives, and more rapidly disappeared in subsequent backcross generations. We propose that a foreign gene or transgene that is integrated in the C-chromosome of Brassica napus could reduce the risk of introgression in nature.     

Mapping of a broad-spectrum brown planthopper resistance gene, <Emphasis Type="Italic">Bph3</Emphasis>, on rice chromosome 6

The brown planthopper (BPH) is one of the most destructive insect pests of rice in Thailand. We performed a cluster analysis that revealed the existence of four groups corresponding to the variation of virulence against BPH resistance genes in 45 BPH populations collected in Thailand. Rice cultivars Rathu Heenati and PTB33, which carry Bph3, showed a broad-spectrum resistance against all BPH populations used in this study. The resistant gene Bph3 has been extensively studied and used in rice breeding programs against BPH; however, the chromosomal location of Bph3 in the rice genome has not yet been determined. In this study, a simple sequence repeat (SSR) analysis was performed to identify and localize the Bph3 gene derived from cvs. Rathu Heenati and PTB33. For mapping of the Bph3 locus, we developed two backcross populations, BC₁F₂ and BC₃F₂, from crosses of PTB33 × RD6 and Rathu Heenati × KDML105, respectively, and evaluated these for BPH resistance. Thirty-six polymorphic SSR markers on chromosomes 4, 6 and 10 were used to survey 15 resistant (R) and 15 susceptible (S) individuals from the backcross populations. One SSR marker, RM190, on chromosome 6 was associated with resistance and susceptibility in both backcross populations. Additional SSR markers surrounding the RM190 locus were also examined to define the location of Bph3. Based on the linkage analysis of 208 BC₁F₂ and 333 BC₃F₂ individuals, we were able to map the Bph3 locus between two flanking SSR markers, RM589 and RM588, on the short arm of chromosome 6 within 0.9 and 1.4 cM, respectively. This study confirms both the location of Bph3 and the allelic relationship between Bph3 and bph4 on chromosome 6 that have been previously reported. The tightly linked SSR markers will facilitate marker-assisted gene pyramiding and provide the basis for map-based cloning of the resistant gene.     

Genetic Analysis and Physical Mapping of Lk-4(t), a Major Gene Controlling Grain Length in Rice, with a BC2F2 Population

Grain size and shape are important factors affecting grain quality and yield in rice. Mapping, tagging and identification of their related genes can lead us to understand their expression pattern and mechanism network, which is to their control. In this study we mapped a grain length controlling gene named Lk-4(t) with SSR and CAPs markers by screening 800 recessive plants in a BC₂F₂ population derived from a cross of Shuhui527xXiaoli and backcrossed with Xiaoli as the donor parent. The distribution of grain shape parameters and thousand grain weight in F₂ and BC₂F₂ population showed that backcross can diminish most unnecessary variations to identify the target gene more clearly. There were only two grain length phenotypes found among the 3 209 BC₂F₂ plants, long and short, indicating it is a qualitative trait. The frequency distribution for the grain length showed a typical segregation ratio of 3 : 1, suggesting that only one allele was responsible for the variation. By screening the recessive long grain plants with three CAPs markers, P1-EcoR V, P2-Sac I and P3-Mbo I, we tagged the locus on the arm of chromosome 3 near the centromere. Lk-4(t) was located between P1-EcoRV and P2-Sac I, with genetic distance of 0.90 cM and 0.50 cM from the two markers respectively. Mapping of the gene is a foundation for its final identification and function analysis.     

An Integrated High-density Linkage Map of Soybean with RFLP, SSR, STS, and AFLP Markers Using A Single F2 Population

Soybean [Glycine max (L.) Merrill] is the most important leguminouscrop in the world due to its high contents of high-quality proteinand oil for human and animal consumption as well as for industrialuses. An accurate and saturated genetic linkage map of soybeanis an essential tool for studies on modern soybean genomics.In order to update the linkage map of a F₂ population derivedfrom a cross between Misuzudaizu and Moshidou Gong 503 and tomake it more informative and useful to the soybean genome researchcommunity, a total of 318 AFLP, 121 SSR, 108 RFLP, and 126 STSmarkers were newly developed and integrated into the frameworkof the previously described linkage map. The updated geneticmap is composed of 509 RFLP, 318 SSR, 318 AFLP, 97 AFLP-derivedSTS, 29 BAC-end or EST-derived STS, 1 RAPD, and five morphologicalmarkers, covering a map distance of 3080 cM (Kosambi function)in 20 linkage groups (LGs). To our knowledge, this is presentlythe densest linkage map developed from a single F₂ populationin soybean. The average intermarker distance was reduced to2.41 from 5.78 cM in the earlier version of the linkage map.Most SSR and RFLP markers were relatively evenly distributedamong different LGs in contrast to the moderately clusteredAFLP markers. The number of gaps of more than 25 cM was reducedto 6 from 19 in the earlier version of the linkage map. Thecoverage of the linkage map was extended since 17 markers weremapped beyond the distal ends of the previous linkage map. Inparticular, 17 markers were tagged in a 5.7 cM interval betweenCE47M5a and Satt100 on LG C2, where several important QTLs wereclustered. This newly updated soybean linkage map will enableto streamline positional cloning of agronomically importanttrait locus genes, and promote the development of physical maps,genome sequencing, and other genomic research activities.     

A single genetic locus in chromosome 1 controls conditional browning during the induction of calli from mature seeds of Oryza sativa ssp. indica

Being the crucial step for rice transgenic manipulation, callus culture from mature seeds is severely restricted by browning of induced calli, especially in the case of indica (Oryza Sativa L.) rice. Once this browning occurs, the callus will die and no embryonic calli can be obtained for regeneration. Here we report an induction procedure that overcomes callus browning was found. To clarify the inheritance pattern of callus browning, two reciprocal crosses F₂ and two backcrosses BC₁ were made between indica cultivar inbred lines 93-11 and YueTaiB (YTB) which produced normal and browning respectively in the same induction medium. The ratio of browning to normal in the reciprocal F₂ and backcross (BC₁) populations tested was approximately 1:3 and 1:1, respectively, these results indicate that callus browning is controlled by one single chromosomal locus which is tentatively named Ic1 (Induced callus 1). The genetic mapping of this locus was carried out using microsatellite markers (SSR) in a 216 extremely browning F₂ seed callus. The analysis of genetic linkage indicated that one single locus that mapped to chromosome 1 was correlated to callus browning, and the closest marker in this study was mapped within 1.9 cM from the target locus.     

Inheritance and molecular mapping of a downy mildew resistance gene, Pl 13 in cultivated sunflower (Helianthus annuus L.)

The inheritance of resistance to sunflower downy mildew (SDM) derived from HA-R5 conferring resistance to nine races of the pathogen has been determined and the new source has been designated as Pl ₁₃ . The F₂ individuals and F₃ families of the cross HA-R5 (resistant) × HA 821 (susceptible) were screened against the four predominant SDM races 300, 700, 730, and 770 in separate tests which indicated dominant control by a single locus or a cluster of tightly linked genes. Bulked segregant analysis (BSA) was carried out on 116 F₂ individuals with 500 SSR primer pairs that resulted in the identification of 10 SSR markers of linkage groups 1 (9 markers) and 10 (1 marker) of the genetic map (Tang et al. in Theor Appl Genet 105:1124–1136, 2002) that distinguished the bulks. Of these, the SSR marker ORS 1008 of linkage group 10 was tightly linked (0.9 cM) to the Pl ₁₃ gene. Genotyping the F₂ population and linkage analysis with 20 polymorphic primer pairs located on linkage group 10 failed to show linkage of the markers with downy mildew resistance and the ORS 1008 marker. Nevertheless, validation of polymorphic SSR markers of linkage group 1 along with six RFLP-based STS markers of linkage group 12 of the RFLP map of Jan et al. (Theor Appl Genet 96:15–22, 1998) corresponding to linkage group 1 of the SSR map, mapped seven SSR markers (ORS 965-1, ORS 965-2, ORS 959, ORS 371, ORS 716, and ORS 605) including ORS 1008 and one STS marker (STS10D6) to linkage group 1 covering a genetic distance of 65.0 cM. The Pl ₁₃ gene, as a different source with its location on linkage group 1, was flanked by ORS 1008 on one side at a distance of 0.9 cM and ORS 965-1 on another side at a distance of 5.8 cM. These closely linked markers to the Pl ₁₃ gene provide a valuable basis for marker-assisted selection in sunflower breeding programs.     

Inheritance and mapping of a powdery mildew resistance gene introgressed from Avena macrostachya in cultivated oat

The powdery mildew resistance from Avena macrostachya was successfully introgressed into hexaploid oat (A. sativa). Genetic analysis of F₁, F₂, F₃ and BC₁ populations from two powdery-mildew resistant introgression lines revealed that the resistance is controlled by a dominant gene, tentatively designated Eg-5. Molecular marker analysis was conducted using bulked-segregant analysis in two segregating F₃ populations. One codominant simple sequence repeats (SSR) marker AM102 and four AFLP-derived PCR-based markers were successfully developed. The SSR marker AM102 and the STS marker ASE41M56 were linked to the gene Eg-5, with genetic distances of 2 and 0.4 cM, respectively, in both mapping populations. Three STS markers (ASE45M56, ASE41M61, ASE36M55) co-segregated with Eg-5 in one population while two (ASE45M56, ASE36M55) of them linked to Eg-5 with a genetic distance of 1 cM in another population. The gene was further mapped to be in a region corresponding to linkage group 22_44+18 in the Kanota × Ogle (KO) hexaploid oat map by comparative mapping. To our knowledge, this is the first report of mapping powdery-mildew resistance in hexaploid oat. The new resistance source of A. macrostachya, together with the tightly linked markers identified here, could be beneficial in oat breeding programmes.     

Microsatellite and AFLP markers in the Prunus persica [L. (Batsch)]×P. ferganensis BC1linkage map: saturation and coverage improvement

A set of 146 single sequence repeats (SSRs) and 14 amplified fragment length polymorphism (AFLP) primer combinations were used to enrich a previously developed linkage map obtained from a (Prunus persica×P. ferganensis)×P. persica BC₁ progeny. Forty-one SSR primer pairs gave polymorphic patterns detecting 42 loci. The restriction/selective primer AFLP combinations produced a total of 79 segregating fragments. The resulting map is composed of 216 loci covering 665 cM with an average distance of 3.1 cM. Novel regions were covered by the newly mapped loci for a total of 159 cM. Eight linkage groups were assembled instead of the earlier 10 as two small groups (G1a and G8b), previously independent, were joined to their respective major groups (G1b and G8a). Several gaps were also reduced resulting in an improved saturation of the map. Twelve gaps ≥10 cm are still present. A comparative analysis against the Prunus reference map (71 anchor loci) pointed out an almost complete synteny and colinearity. Six loci were not syntenic and only two were not colinear. Genetic distances were significantly longer in our map than in the reference one.     

Identification and Validation of Quantitative Trait Loci for Agronomic Traits in Advanced Backcross Breeding Lines Derived from Oryza rufipogon × Oryza sativa Cultivar MR219

A backcross breeding strategy was used to identify quantitative trait loci (QTLs) associated with 14 traits in a BC₂F₂ population derived from a cross between MR219, an indica rice cultivar and an accession of Oryza rufipogon (IRGC 105491). A total of 261 lines were genotyped with 96 microsatellite markers and evaluated for plant morphology, yield components and growth period. The genetic linkage map generated for this population with an average interval size of 16.2?cM, spanning 1,553.4?cM (Kosambi) of the rice genome. Thirty-eight QTLs were identified with composite interval mapping (CIM), whereas simple interval mapping (SIM) resulted in 47 QTLs (LOD >3.0). The O. rufipogon allele was favourable for 59% of QTLs detected through CIM. Of 261 BC₂F₂ families, 26 advanced backcross breeding lines (BC₂F₅) were used for QTL validation. These lines were selected on the basis of the yield traits potentiality in BC₂F₃ and BC₂F₄ generations. The field trial was conducted at three different locations in Malaysia using randomized complete block design with three replications. Trait based marker analysis was done for QTL determination. Twenty-five QTLs were detected in BC₂F₅ generation whereas 29 QTLs were detected in BC₂F₂ generation of the same population. Two QTLs (qPL-1 and qSPL-7) were not considered for validation due to their low R ² values and two QTLs (qPSS-3-2 and qGW-3-2) were not detected in the BC₂F₅ population. Fifteen QTLs showed the beneficial effect to enhance the trait value of the breeding lines. QTL validation aided to select the promising lines for further utilization.