Development of methods of sampling survey and analysis for field conservation genetics

田间保护遗传学抽样调查与分析方法的建立

• 批准号: 13308013
• 负责人: KISHINO Hirohisa
• 金额: $ 29.7万
• 依托单位: THE UNIVERSITY OF TOKYO
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Scientific Research (A)
• 财政年份: 2001
• 资助国家: 日本
• 起止时间: 2001 至 2003
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-13308013/
• 关键词: rare populations and gene flow; population structure and linkage disequilibrium; inbreeding depression and segregation distortion; QTL analysis of outbreeding population; polymorphic markers; viral molecular evolution; change in rate of molecular ev

The purpose of our project is to develop efficient methods of field survey and data analysis for conservation genetics by close collaboration between field ecologists and statisticians. The achievement is summarized as :a)Population genetics approach in risk analysis of micro-organism : We developed a partial likelihood procedure to infer the effective population sizes and rates of molecular evolutions of viral sequences within hosts, and investigated an optimal sampling design of viral sequences for the inference of adaptive evolution within a host. Analysis of HIV-1 env gene showed a negative correlation between them.b)Primula as an endangered plant population : Method of QTL mapping for outbreeding populations was developed, and crossing experiments of different types of floral architectures were conducted to estimate the QTLs of the related traits. By paternity analysis of microsattelite markers, the extent of gene flow was studied.c)Anopheles dirus mosquitoes as vectors of malaria … More : Samples were collected from the whole area of Southeast Asia. Population genetic analysis of COI and CoII genes in mitochondria revealed evidence of introgression over the species boundary. Experimental design of the number of microsattelite markers and categorization of genotypes were studied for the inference of population structure. Analysis of these genes with a semiparametric coalescent model implied a bottleneck around some 0.2MYA followed by population expansion.d)Hybrid zone of grasshoppers in Spain : Samples of Chorthippus brunneus and C jacobsi were collected from the hybrid zone in northern Spain and crossing experiment was conducted. Software was developed to measure the genetic background of the song, an important character contributing to prezygotic isolation. Software of automatic typing of AFLP markers was also developed for QTL analysis.e)Conservation genetics in stock enhancement : To study how stock enhancement program may have affected the genetic structure in the wild population, an empirical Bayes procedure was developed to estimate the extent of population differentiation and mitochondrial DNA data of Pagrurs major (Japanese red sea bream) was analyzed. A hierarchical model for simultaneous detection of linkage disequilibrium and genetic differentiation of subdivided populations. Its efficacy was examined by numerical simulation and the analyses of isozyme data Plecoglossus altivelis altivelis (ayu) and SNP data from human populations. Less

本项目的目的是通过野外生态学家和统计学家之间的密切合作，为保护遗传学制定有效的野外调查和数据分析方法。1）微生物风险分析中的群体遗传学方法：我们发展了一种推断病毒序列在宿主内的有效群体大小和分子进化速率的偏似然方法，并研究了用于推断宿主内适应性进化的病毒序列的最优抽样设计。B）濒危植物报春花：建立了远交群体QTL定位方法，并通过不同花型的杂交试验，对相关性状进行了QTL定位。通过微卫星标记的亲子关系分析，研究了基因流动的程度。 ...更多信息 ：从整个东南亚地区采集样本。线粒体中COI和CoII基因的群体遗传学分析揭示了物种边界渐渗的证据。研究了微卫星标记数量的实验设计和基因型分类，以推断群体结构。这些基因的分析与半参数结合模型暗示了一个瓶颈，约0.2MYA的人口扩张。d）在西班牙的蝗虫杂交区：从西班牙北方的杂交区收集的样品的Chorthippus brunneus和C jacobsi和杂交实验进行。软件被开发来测量歌曲的遗传背景，这是一个有助于前合子隔离的重要特征。e）资源增殖中的保护遗传学：为了研究资源增殖对野生群体遗传结构的影响，本研究采用经验贝叶斯方法估计了真鲷（Pagrurs major）的群体分化程度，并分析了真鲷（Japanese red sea bream）线粒体DNA数据。同时检测细分群体连锁不平衡和遗传分化的层次模型。通过数值模拟、同工酶数据分析和SNP数据分析等方法，对香鱼的疗效进行了验证。少

项目成果

Miyakoshi, Y., Nagata, M., Sugiwakam, K., Kitada, S.: "Commercial harvest of hatchery-reared masu salmon Oncorhynchus masousmolts estimated by a coast-wide sampling program in Hokkaido, northern Japan, and the two-stage sampling schemes of landings."Fishe

Miyakoshi, Y.、Nagata, M.、Sugiwakam, K.、Kitada, S.：“通过日本北部北海道全海岸采样计划估算的孵化场饲养的马苏鲑鱼 Oncorhynchus masousmolts 的商业收获量，以及两阶段的结果

安藤大成, 宮腰靖之, 竹内勝巳, 永田光博, 佐藤孝弘, 柳井清治, 北田修一: "都市近郊の河川におけるサクラマス幼魚の遊漁による釣獲尾数の推定"日本水産学会誌. 68. 52-60 (2002)

Taisei Ando、Yasuyuki Miyakoshi、Katsumi Takeuchi、Mitsuhiro Nagata、Takahiro Sato、Seiji Yanai、Shuichi Kitada：“估算城市附近河流中休闲钓鱼捕获的幼年樱桃鲑鱼的数量”日本水产学会杂志。 68. 52-60 (2002))

Noda, H., Muraoka, H., Washitani, I.: "Morphological and physiological acclimation responses to contrasting light and water regimes in Primula sieboldii, an endangered clonal herb in Japan."Ecological Research. (印刷中). (2004)

Noda, H.、Muraoka, H.、Washitani, I.：“报春花（一种日本濒临灭绝的克隆草本植物）对光照和水环境对比的形态和生理适应反应。”生态研究（2004 年）。

Tatsuta, H., Mizota, K., Akimoto, S.: "Relationship between size and shape in the sexually dimorphic beetle Prosopocoilus inclinatus (Coleoptera : Lucanidae)"Biological Journal of the Linnean Society. (印刷中). (2004)

Tatsuta, H.、Mizota, K.、Akimoto, S.：“性二态甲虫 Prosopocoilus inclinatus（鞘翅目：Lucanidae）的大小和形状之间的关系”林奈学会生物学杂志（2004 年）。

Kitada, S., Tezuka, K.: "Longitudinal logbook survey designs for estimating recreational fishery catch with application to ayu (Plecoglossrrs altivelis)."Fishery Bulletin.. 100. 228-243 (2002)

Kitada, S., Tezuka, K.：“用于估算休闲渔业渔获量的纵向日志调查设计，应用于香鱼 (Plecoglossrrs altivelis)。”渔业公报.. 100. 228-243 (2002)