结合SSR标记和STS标记对家蚕无鳞毛翅基因的定位

家蚕突变表型无鳞毛翅(non-lepis wing, nlw)由隐性基因nlw控制。由于家蚕雌性不发生交换, 文章采用有鳞毛翅品系P50和无鳞毛翅品系U06两个品系组配F1代及BC₁回交群体, (U06×P50)×U06和U06×(U06×P50)分别记作BC₁F和BC₁M, 根据已经构建的家蚕SSR分子标记连锁图谱及已经发表的有关序列对nlw基因进行了连锁及定位分析。得到8个与nlw基因连锁的SSR(Simple sequence repeat)标记和1个STS(Sequence-tagged sites)标记。BC₁F群中的所有正常翅个体均表现出与(U06×P50)F₁相同的杂合带型; 而所有无鳞毛个体带型与亲本U06一致, 为纯合型。利用BC₁M群体构建了关于nlw基因的遗传连锁图, 连锁图的遗传距离为125.7 cM, 与nlw基因最近的引物为STS标记cash2p, 图距为11.4 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。     

家蚕Z染色体遗传图谱的构建及W染色体特异性标记的鉴定

家蚕的雌性为异配性别(ZW),雄性为同配性别(ZZ),这种性别决定机制在鳞翅目昆虫中是普遍存在的。尽管雌家蚕是由W染色体决定的,但还没有发现控制雌家蚕形态学特点的基因位于W染色体上。目前已知控制家蚕多种表型和重要经济性状的基因位于Z染色体上,但这也仅仅是了解了Z染色体DNA分子信息的2%。印度的科学家迄今为止的研究表明雄家蚕Z染色体没有剂量补偿效应。他们利用回交作图群体和RAPD、SSR、FISSR标记,以od隐性基因位点为锚定位点标记,构建了含有16个遗传标记总距离为334.5cM的家蚕Z染色体连锁图谱;该距离表明这些标记遍布在Z…     

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。     

家蚕非滞育红卵突变体Re-nd突变基因的定位克隆

【目的】家蚕Bombyx mori非滞育红卵突变体Re-nd是唯一在非滞育状态下卵色呈现鲜红色的突变品种。本研究通过基因连锁分析和定位克隆的方法确定Re-nd的突变基因所在的染色体及紧密连锁位置,为后续Re-nd的功能研究及应用奠定基础。【方法】以家蚕卵色突变体Re-nd和野生型大造进行杂交,配制基因连锁分析群体材料和定位克隆群体材料;针对家蚕全染色体进行SNP标记开发,利用BC₁代群体材料进行基因连锁分析,确定Re-nd的突变基因所在的染色体;针对定位的Re nd的突变基因所在染色体进行SNP标记开发,利用BC₁群体材料对Re-nd的突变基因进行定位克隆。【结果】基因连锁分析结果显示Re-nd的突变表型与第6号染色体上的SNP标记完全连锁;初步定位克隆结果显示Re-nd的突变基因位于SNP标记SNP7和SNP17之间,物理距离4.04 Mb;以SNP7和SNP17之间筛选出的6个SNP标记和25个重组个体进行精细定位克隆,结果显示Re-nd的突变基因所在的区域位于SNP10和SNP12两个SNP标记之间的nscaf2853上,物理距离949.3 kb左右。【结论】将Re-nd的突变基因定位于第6号染色体的2个SNP标记SNP10和SNP12之间,物理距离约949.3 kb。本研究为后续Re-nd突变基因的精细定位及功能应用研究奠定了基础。     

含有母性影响遗传基因的连锁定位系的构建

母性影响遗传基因由于其杂交后代的表型受母本基因型的影响, 而不能直接反映当代个体的基因型, 这给连锁定位测交亲本(三隐性或双隐性系统)的培育带来困难, 从而影响这类基因的定位研究。设计了一套杂交培育方案, 其核心是使母性影响遗传基因先纯合, 再使非母性影响遗传基因纯合。采用所设计的方案, 成功培育了家蚕第13连锁群的赤蚁(ch)、无鳞毛翅(nlw, 新突变)和褐色卵t (b-t, 母性影响遗传)的三隐性系统, 并培育了第19连锁群的狭胸(nb)和第二肾形卵(ki-2, 母性影响遗传, 待定位突变基因)的双隐性系统。     

利用杉木的F1代群体构建遗传连锁图谱

对于杉木11分离的分子标记位点,提出了一种新的构建遗传连锁图谱的策略.通过二点连锁分析,任意两个位点的连锁相和重组率可以得到推断和估计.对于一个连锁群中的最优排序,采用隐马尔可夫链模型的方法进行多位点的连锁分析.该作图方法比通常林木上所用的"拟测交"作图方法更有效.采用该作图策略,利用句容0号无性系(♀)×柔叶杉(♂)的F1代群体的AFLP分子标记数据重建了句容0号无性系和柔叶杉的遗传连锁图谱.在句容0号无性系的连锁图谱中,有101个标记分布在11个连锁群上,图谱的总长度为2 282.6 cM,平均图距为22.6 cM,单个连锁群上最多含有17个标记,最少含有5个标记;在柔叶杉的连锁图谱中,有94个标记分布在11个连锁群上,图谱的总长度为2 565.8 cM,平均图距为27.3 cM,单个连锁群上最多含有16个标记,最少含有4个标记.构建的句容0号无性系和柔叶杉的遗传连锁图谱比原有的图谱分别增加了26个标记和28个标记,双亲的图谱共增加了54个AFLP标记,使图谱上的分子标记总数达到195个,双亲遗传图谱的跨度均超过了2 000 cM,基本上达到了杉木基因组的长度,图谱的覆盖率接近于100%.利用新的作图方法可以较大提高分子标记在图谱上的分辨率,得到可认为是覆盖了整个基因组的遗传连锁框架图.     

基于SRAP分子标记的冰草遗传连锁图谱构建

构建高密度遗传连锁图谱是冰草抗性、品质、产量等重要性状QTL精细定位及标记辅助育种研究的基础。该试验以四倍体杂交冰草F2群体的202个分离单株及其亲本为材料,利用SRAP分子标记技术和Join Map 4.0作图软件对冰草的遗传连锁图谱进行了构建。结果表明:(1)共筛选出22对多态性好、标记位点清晰稳定的SRAP适宜引物,对冰草杂种F2分离单株的基因组DNA进行PCR扩增,共获得510个SRAP多态性标记位点,其比率占88.2%。(2)偏分离分析表明,偏分离标记比率仅为14.12%,符合遗传作图的要求。(3)成功构建了冰草的SRAP分子标记遗传连锁图谱,该图谱有14个连锁群、510个标记,连锁群间长度范围86.4～179.0cM,覆盖基因组总长度1 912.9cM,标记间平均间距3.75cM,为高密度遗传图谱。     

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。     

家蚕AFLP连锁框架图谱的构建

利用改进的AFLP分子标记方法,对家蚕Bombyx mori回交一代BC1群体进行连锁图谱的构建。经17组AFLP引物的选择性扩增,共得到430个多态位点,卡方检验后有253个为有效位点。利用Mapmaker/Exp (Version 3.0b)软件作连锁分析,其中163个标记分属28个连锁群,连锁群标记数变化范围是2～28个,平均每个连锁群标记数为5.8个,该图覆盖的基因组长度为2.998.9cM(图距单位),连锁群长度变化范围为4.5～652.8 cM,连锁群的平均长度为107.1 cM,平均图距为4.5～36.7 cM。     

家蚕两种新的类鹑斑突变体的遗传分析和SSR标记定位

在家蚕品种选育过程中发现了两种斑纹突变体, 与普通斑相比, 其幼虫眼状纹不明显, 而半月纹和星状纹正常, 其间有点和线构成鹑状斑纹, 第6、7腹节背面布有纵向波纹状斑纹, 整体斑纹与鹑斑(quail,q)极其相似, 暂且命名为类鹑斑(quail-like, q-l)。其中一种突变体稚蚕期体色呈褐色, 蚕体发育正常, 蚕茧大小一致, 茧型正常, 称为褐色类鹑斑(brown quail-like, q-lb); 另一种突变体幼虫体色为浅粉紫色, 幼虫食桑量少, 发育缓慢, 体质较弱, 体型较小, 茧型偏小, 称为紫色类鹑斑(purple quail-like, q-lp)。遗传分析表明, 两个类鹑斑基因均为隐性基因; 褐色类鹑斑(q-lb)与紫色类鹑斑(q-lp) 为等位基因, 紫色类鹑斑(q-lp)对褐色类鹑斑(q-lb)为隐性。经与形态标记P3(2)、p(2)、Ze(3)、L(4)、re(5)、E(6)、q(7)、I-a(9)、ms(12)、ch(13)、oa(14)、cts(16)、mln(18)、 msn(19)、rb(21)、so(26)测验和SSR分子标记多态性分析, 新发现的两种类鹑斑不同于鹑斑(q), 其基因座位于第8连锁群。     

Linkage and mapping analyses of the densonucleosis non-susceptible gene nsd-Z in the silkworm Bombyx mori using SSR markers.

In the silkworm Bombyx mori, non-susceptibility to the Zhenjiang (China) strain of the densonucleosis virus (DNV-Z) is controlled by the recessive gene nsd-Z (non-susceptible to DNV-Z), which is located on chromosome 15. Owing to a lack of crossing over in females, reciprocal backcrossed F1 (BC1) progeny were used for linkage analysis and mapping of the nsd-Z gene using silkworm strains Js and L10, which are classified as being highly susceptible and non-susceptible to DNV-Z, respectively. BC1 larvae were inoculated with the DNV-Z virus at the first instar, and DNA was extracted from the individual surviving pupae and analyzed for simple sequence repeat (SSR) markers. The nsd-Z gene was found to be linked to 7 SSR markers, as all the surviving larvae in the BC1female (F1female x L10male) showed the homozygous profile of strain L10, and the sick larvae in the BC1female (F1female x L10male) showed the heterozygous profile of Js x L10 F1 hybrids. Using a reciprocal BC1male (L101female x F1male) cross, we constructed a linkage map of 80.6 cM, with nsd-Z mapped at 30 cM and the closest SSR marker at a distance of 4.4 cM.     

Genetic mapping of Z chromosome and identification of W chromosome-specific markers in the silkworm, Bombyx mori

In the silkworm, Bombyx mori, the female is the heterogametic (ZW) sex and the male is homogametic (ZZ). The female heterogamety is a typical situation in the insect order Lepidoptera. Although the W chromosome in silkworm is strongly female determining, no W-linked gene for a morphological character has been found on it. The Z chromosome carries important traits of economic value as well as genes for various phenotypic traits, but only 2% of molecular information based on its relative size is known. Studies conducted so far indicate that the Z-linked genes are not dosage compensated. In the present study, we constructed a genetic map of randomly amplified polymorphic DNA fragments (RAPD), simple sequence repeats (SSR), and fluorescent intersimple sequence repeat PCR (FISSR) markers for the Z chromosome using a backcross mapping population. A total of 16 Z-linked markers were identified, characterized, and mapped using od, a recessive trait for translucent skin as an anchor marker yielding a total recombination map of 334.5 cM. The linkage distances obtained suggested that the markers were distributed throughout the Z chromosome. Four RAPD and four SSR markers that were linked to W chromosome were also identified. The proposed mapping approach should be useful to identify and map sex-linked traits in the silkworm. The economic and evolutionary significance of Z- and W-linked genes in silkworm, in particular, and lepidopterans, in general, is discussed.     

New markers and map sequences inNeurospora crassa,with a description of mapping by duplication coverage,and of multiple translocation stocks for testing linkage

Thirty previously unmapped markers have been located; 13 are at newly designated loci. Numerous sequences for previously mapped genes have also been determined. A revised map of linkage group I is presented. The order from conventional mapping has been confirmed by testing recessive markers in IL for coverage by duplications. Assignment of new mutants to linkage groups is greatly facilitated by using gene-tagged multiple translocation strains for linkage detection; these “alcoy” tester strains and procedures for using them are described. Recent mapping data of other workers are compiled. Distal markers are now known for all but one of the 14 chromosome arms, but extensive map segments are still devoid of markers.     

Genetic mapping of the evergrowing gene in peach [Prunus persica (L.) Batsch

In temperate locations, terminal apices on evergrowing (also called evergreen) peach trees keep growing in winter until killed by low temperatures, while the lateral buds go into dormancy. A recessive allele of a single gene (evergrowing or evg) controls this trait in peach. The amplified fragment length polymorphism (AFLP) technique and bulked segregant analysis were applied to construct a local genetic linkage map for the evg gene from the cross Empress op op dwarf x Evergrowing (P.I. 442380). This map, comprising nine AFLP markers and the evg locus, covers a total genetic distance of 79.3 cM. Four dominant AFLP markers (EAT/MCAC, ETT/MCCA2, EAT/MCTA, and ETT/MACC) were linked to the evg locus at distances of 1, 5.3, 6.7, and 11.7 cM, respectively. EAT/MCAC and EAT/MCTA were converted into polymorphic sequence-tagged sites. Microsatellite markers in the evg region were developed from peach bacterial artificial chromosome (BAC) clones that hybridized to the AFLP marker fragments. Using three microsatellite anchor markers (pchgms12, pchgms17, and pchgms19), the local genetic linkage map was integrated into one minor linkage group of a previously constructed peach rootstock genetic linkage map. Three AFLP markers from the rootstock genetic linkage map were found linked to the evg locus.     

The egg size determining gene,Esd, is a unique morphological marker on the W chromosome ofBombyx mori

Triploid females of the silkworm,Bombyx mori, were produced by crossing a tetraploid female with a male carrying asch (sex-linked chocolate) gene on its Z chromosomes. Since thesch gene expresses the color of reddish brown (chocolate) in newly hatched larvae, the females with ZWW chromosomes become chocolate, while those with ZZW have normal color (black). The effects of the W chromosome on oogenesis were studied by comparing these two types of 3n females. Despite the fact that the theoretical value of the ratio of chocolate larvae to black larvae should be 1:5, the actual ratio was found to be 1:80. The chocolate larvae revealed very low hatchability. Thirteen adult ZWW female moths were obtained, all laying normal-shaped eggs and even larger than those of 4n females which also have two W chromosomes. Eighty percent of the eggs of ZZW 3n females were irregular-shaped, and the size of the normal-shaped eggs was as large as that of 2n females which possess one W chromosome. It is hypothesized that egg size is determined by a gene on the W chromosome. The higher frequency of normal-shaped eggs in the ZWW female group than the ZZW female group suggests the presence of another kind of gene on the W chromosome, which leads to normal oogenesis.     

A genetic linkage map of the model legume Lotus japonicus and strategies for fast mapping of new loci

A genetic map for the model legume Lotus japonicus has been developed. The F(2) mapping population was established from an interspecific cross between L. japonicus and L. filicaulis. A high level of DNA polymorphism between these parents was the source of markers for linkage analysis and the map is based on a framework of amplified fragment length polymorphism (AFLP) markers. Additional markers were generated by restriction fragment length polymorphism (RFLP) and sequence-specific PCR. A total of 524 AFLP markers, 3 RAPD markers, 39 gene-specific markers, 33 microsatellite markers, and six recessive symbiotic mutant loci were mapped. This genetic map consists of six linkage groups corresponding to the six chromosomes in L. japonicus. Fluorescent in situ hybridization (FISH) with selected markers aligned the linkage groups to chromosomes as described in the accompanying article by Pedrosa et al. 2002(this issue). The length of the linkage map is 367 cM and the average marker distance is 0.6 cM. Distorted segregation of markers was found in certain sections of the map and linkage group I could be assembled only by combining colormapping and cytogenetics (FISH). A fast method to position genetic loci employing three AFLP primer combinations yielding 89 markers was developed and evaluated by mapping three symbiotic loci, Ljsym1, Ljsym5, and Ljhar1-3.     

Molecular mapping of the shrunken endosperm genes seg8 and sex1 in barley (Hordeum vulgare L.).

A number of mutations affecting seed development in barley (Hordeum vulgare L.) have been known for many years; however, to date, no research has been reported that elucidates the molecular structure of the causal genes. As a first step, we initiated the linkage mapping of the two shrunken endosperm genes seg8 and sex1 using microsatellite markers. The recessive gene seg8 was mapped in the centromeric region of chromosome 7H to a 4.6 cM interval flanked by markers GBM1516 and Bmag341. The recessive sex1 gene showed xenia effects and was located in the centromeric region of barley chromosome 6H, which is in accordance to the previously reported chromosomal location in the classical linkage map. It was flanked by markers GBM5012 and GBM1063 in a 4.2 cM interval. EST-derived microsatellite markers were used to establish the syntenic relationships to the genomic rice sequences. Two orthologous sites on rice chromosome 2 flanking a 4.1 Mb sequence had homology to the respective barley markers in the sex1 region. For the markers in the seg8 region orthologous sites on rice chromosome 6 were detected.