稻米外观品质性状遗传与分子定位研究进展

稻米外观品质主要是指稻米的粒形、垩白、透明度和籽粒色泽等,它不仅直接影响到人们的喜好,还与其他品质性状诸如蒸煮食用、加工等密切相关。因此,外观品质对稻米的商品价值有着十分重要的影响。本文从经典遗传与现代分子生物学两个方面对稻米主要外观品质的遗传研究进展进行了较全面的综述,包括粒长、粒宽、长宽比、粒厚、垩白、透明度和籽粒色泽等。综合近年来的遗传研究结果发现,大多数稻米外观品质性状都是由数量基因控制的。利用分子标记技术已将控制外观品质的QTL（qualitative trait locus）定位在不同的染色体上,为下一步的稻米外观品质改良提供了有利条件。     

Allelic Association: Linkage Disequilibrium Structure and Gene Mapping

The linkage disequilibrium (LD) structure of the human genome is now well understood and characterised for a number of human populations. The LD structure underpins the design and execution of candidate gene and genome-wide association mapping studies. Successful association mapping studies completed to date provide vital new insights into the genetic influences on common diseases, such as diabetes, some cancers and heart disease. The LD structure also presents new avenues of research into the genetic history of human populations, the effects of natural selection and the impact of recombination on the genomic landscape. This review introduces this exciting and complex field by encompassing this range of topics.     

Improved scoring function for comparative modeling using the M4T method

Improvements in comparative protein structure modeling for the remote target-template sequence similarity cases are possible through the optimal combination of multiple template structures and by improving the quality of target-template alignment. Recently developed MMM and M4T methods were designed to address these problems. Here we describe new developments in both the alignment generation and the template selection parts of the modeling algorithms. We set up a new scoring function in MMM to deliver more accurate target-template alignments. This was achieved by developing and incorporating into the composite scoring function a novel statistical pairwise potential that combines local and non-local terms. The non-local term of the statistical potential utilizes a shuffled reference state definition that helped to eliminate most of the false positive signal from the background distribution of pairwise contacts. The accuracy of the scoring function was further increased by using BLOSUM mutation table scores.     

Delimitation of the <Emphasis Type="Italic">fgr</Emphasis> gene for rice fragrance to a 28-kb DNA fragment

The fragrance gene plays an important role in high-quality rice varieties and has been widely used in breeding programs. Using a random sample of 370 individuals from an F₂ segregating population developed from a cross between a japonica rice variety 9407 with fragrant flavor and an indica variety IRBB60, the fgr locus was mapped on chromosome 8 between SSR markers, PSM465 and RM1109, with genetic distances of 0.3 cM and 0.1 cM to respective markers. These mapping efforts confirmed the previous mapping results. A large F₃ mapping population with 7300 individuals was then developed from F₂ plants, in which a small chromosomal region defined by the SSR markers, PSM465 and RM1109, was heterozygous. The analysis of recombinants in the fgr region anchored the gene locus to an interval of 28 kb flanked by the left marker NS9 and the right marker L06. Sequence analysis of this fragment predicted three open reading frames encoding putative 3-methylcrotonyl-CoA carboxylase, putative isoleucyl-tRNA synthetase, and betaine aldehyde dehydrogenase (BADH2). The latter was presumed to be the candidate gene for fragrance. This result will be very useful in molecular cloning of the fgr gene and marker-assisted transfer of the fgr gene in rice breeding programs. Published in Russian in Fiziologiya Rastenii, 2009, vol. 56, No. 4, pp. 587–595. This text was submitted by the authors in English.     

Molecular mapping and physical location of major gene conferring seedling resistance to Septoria tritici blotch in wheat

Septoria tritici blotch (STB) caused by Mycosphaerella graminicola (anamorph: Septoria tritici), is one of the most important foliar diseases of wheat. We assessed three doubled-haploid (DH) populations derived from Chara (STB-susceptible)/WW2449 (STB-resistant), Whistler (STB-susceptible)/WW1842 (STB-resistant) and Krichauff (STB susceptible)/WW2451 (STB-resistant) for resistance to a single-pycnidium isolate 79.2.1A of M. graminicola at the seedling stage. STB resistance in each of the three DH populations was conditioned by a single major gene designated as StbWW2449, StbWW1842 and StbWW2451. Linkage analyses and physical mapping indicated that the StbWW loci were located on the short arm of chromosome 1B (IBS). Four simple sequence repeat (SSR) markers linked with STB resistance: Xwmc230, Xbarc119b, Xksum045 and Xbarc008 were located to the distal bin of 1BS.sat1BS-4 (FL: 0.52–1.00) in the 1BS physical map. Xwmc230, Xbarc119b and Xksum045 markers, mapped within 7 cM from StbWW were validated for their linkage and predicted the STB resistance with over 94% accuracy in the 79 advanced breeding lines having WW2449 as one of the parents. The marker interval Xwmc230/Xksum045-Xbarc119b also explained up to 38% of the phenotypic variance at the adult plant stage in all three DH mapping populations. These results have proven that SSR markers are useful in monitoring STB resistance both at seedling and adult plant stages and hence are suitable for routine marker-assisted selection in the wheat breeding programs. Electronic supplementary material  The online version of this article (doi:) contains supplementary material, which is available to authorized users.     

Genetic mapping and localization of a major QTL for seedling resistance to downy mildew in Chinese cabbage (Brassica rapa ssp. pekinensis)

Downy mildew caused by the fungus Peronospora parisitica is a serious threat to members of the Brassicaceae family. Annually, a substantial loss of yield is caused by the widespread presence of this disease in warm and humid climates. The aim of this study was to localize the genetic factors affecting downy mildew resistance in Chinese cabbage (Brassica rapa ssp. pekinensis). To achieve this goal, we improved a preexisting genetic map of a doubled-haploid population derived from a cross between two diverse Chinese cabbage lines, 91-112 and T12-19, via microspore culture. Microsatellite simple sequence repeat (SSR) markers, isozyme markers, sequence-related amplified polymorphism markers, sequence-characterized amplified region markers and sequence-tagged-site markers were integrated into the previously published map to construct a composite Chinese cabbage map. In this way, the identities of linkage groups corresponding to the Brassica A genome reference map were established. The new map contains 519 markers and covers a total length of 1,070 cM, with an average distance between markers of 2.06 cM. All markers were designated as A1–A10 through alignment and orientation using 55 markers anchored to previously published B. rapa or B. napus reference maps. Of the 89 SSR markers mapped, 15 were newly developed from express sequence tags in Genbank. The phenotypic assay indicated that a single major gene controls seedling resistance to downy mildew, and that a major QTL was detected on linkage group A8 by both interval and MQM mapping methods. The RAPD marker K14-1030 and isozyme marker PGM flanked this major QTL in a region spanning 2.9 cM, and the SSR marker Ol12G04 was linked to this QTL by a distance of 4.36 cM. This study identified a potential chromosomal segment and tightly linked markers for use in marker-assisted selection to improve downy mildew resistance in Chinese cabbage.     

Combining Two-Stage Testing and Interval Mapping Strategies to Detect QTL for Resistance to Bonamiosis in the European Flat Oyster Ostrea edulis

We have identified quantitative trait loci (QTL) in the flat oyster (Ostrea edulis) for resistance to Bonamia ostreae, a parasite responsible for the dramatic reduction in the aquaculture of this species. An F₂ family from a cross between a wild oyster and an individual from a family selected for resistance to bonamiosis was cultured with wild oysters injected with the parasite, leading to 20% cumulative mortality. Selective genotyping of 92 out of a total of 550 F₂ progeny (i.e., 46 heavily infected oysters that died and 46 parasite-free oysters that survived) was performed using 20 microsatellites and 34 amplification fragment length polymorphism primer pairs. Both a two-stage testing strategy and QTL interval mapping methods were used. The two-stage detection strategy had a high power with a low rate of false positives and identified nine and six probable markers linked to genes of resistance and susceptibility, respectively. Parent-specific genetic linkage maps were built for the family, spanning ten linkage groups (n = 10) with an observed genome coverage of 69–84%. Three QTL were identified by interval mapping in the first parental map and two in the second. Good concordance was observed between the results obtained after the two-stage testing strategy and QTL mapping.     

几种农作物细胞质雄性不育恢复基因的定位和分子标记研究进展

利用杂种优势提高作物产量时,生产杂交种的主要授粉控制系统是细胞质雄性不育及其恢复系统。在杂交品种的选育过程中,优良恢复系选育至关重要。为了高效并准确地鉴定选择恢复材料,同时更深入地研究恢复基因的作用机理,近年来植物细胞质雄性不育恢复基因分子标记研究受到了广泛重视。本文综述了主要农作物水稻、油菜、小麦、棉花和玉米等细胞质雄性不育类型恢复基因的定位和分子标记研究进展,并讨论了恢复基因的精确定位和分子标记鉴定在基因克隆和分子标记辅助选择育种中的意义和应用前景。     

水稻耐储藏特性研究进展

水稻的耐储藏特性存在品种间差异,从基因型着手培育耐储藏水稻新品种具有重要的意义。从评价体系、遗传因素和基因定位几个方面对近年来水稻稻耐储性的相关研究进行了较系统的综述。     

小鼠的遗传学研究

自20世纪初,小鼠的遗传学研究从宠物农场进入哈佛大学的实验室只有短短一百年的历史;但是,由于小鼠基因组与人类基因组高度同源、小鼠基因组改造手段非常成熟以及小鼠近交系、突变系和工具小鼠品系种类繁多,小鼠遗传学已成为发育生物学、功能基因组学和疾病机理研究的核心研究领域,小鼠也成为最重要的模式生物之一。近年来,随着小鼠基因组序列测序的完成,不同小鼠近交系品系特异的微卫星标记或单核苷酸多态性不断被发现,小鼠生理生化表型分析手段和数据也越来越完善,这些前期工作导致了目前大规模的基因剔除计划、基因突变计划及构建和分析重组近交系计划的实施。这些计划可能构成未来10￣20年中生命科学和医学研究领域的最重要的内容之一。