作物抗旱相关分子标记及其辅助选择的研究进展

分子标记辅助选择育种给作物抗旱育种提供了新的途径。本介绍了国内外在小麦、玉米、水稻、大豆等重要农作物抗旱相关分子标记方面的研究进展。对作物抗旱相关QTL分子标记辅助育种进行了探讨,并对其发展策略提出了一些思考。     

抗条纹叶枯病香稻新品种的分子标记辅助选育

为解决上海主栽水稻品种普遍对条纹叶枯病缺乏抗性、大多数品种成熟期偏晚且食味品质不佳的状况,该研究以高产、广适性粳稻品种‘武运粳7号’为母本,与高抗条纹叶枯病水稻品系‘武2699’进行杂交,获得F1种子,再以早熟、香型优质品种‘太湖香粳’为父本,与(‘武运粳7号’ב武2699’)F_1进行复交,开展聚合育种;并分别利用与水稻抗条纹叶枯病基因QSTV-11b紧密连锁和香味控制基因Badh2共分离的分子标记,对分离世代进行辅助选择,筛选到含这2个基因的纯合基因型单株,结合田间抗性鉴定及香味测定,育成具有香味、高抗水稻条纹叶枯病、高产、优质等特点的早熟晚粳新品种‘沪香粳151’。     

小麦品种梭条花叶病抗性基因遗传分析及分子标记筛选

选用3个抗梭条花叶病的小麦品种“仪宁小麦”、“徐87633”和“西风”为抗病亲本、以感病品种“镇9523”为感病亲本配制了3个杂交组合,对4个亲本及其杂种后代(F1及F2代)单株的田间抗病鉴定表明,3个抗病亲本的抗性均由核基因控制,为显性遗传方式。“仪宁小麦”和“西风”的抗性受两对表现互补效应的显性基因控制;“徐87633”的抗性受一对显性基因控制。选取涉及小麦21条染色体上的266对SSR引物在“仪宁小麦”和“镇9523”间进行筛选,其中108对引物在两亲本间表现多态。根据“仪宁小麦”ד镇9523”F2代单株的田间抗病鉴定结果,采用BSA的方法,将已初筛的108对引物在抗、感池间进行扩增,发现引物Xgwm261在抗、感池间表现多态,表明该引物与“仪宁小麦”的抗病基因连锁,并将该抗病位点初步定位于2DS上。用该标记对F2代224个单株进行PCR扩增,根据扩增结果,采用Mapmaker3.0软件计算遗传距离,结果显示,该标记与抗病位点间的遗传距离为22.9cM。     

Marker Assisted Selection (MAS) for chickpea Fusarium oxysporum wilt resistant genotypes using PCR based molecular markers

The exploration of genetically superior accessions is the key source of germplasm conservation and potential breeding material for the future. To meet the demand of better yielding chickpea cultivars in Pakistan the present study was organized to select more stable and resistant lines from indigenous as well as exotic chickpea germplasm obtained from Plant Genetic Resource Institute (PGRI), National Agricultural Research Centre, Islamabad, Pakistan. For the identification and evaluation of chickpea wilt resistant lines against Fusarium oxysporum f. sp. ciceris (Schlechtends), the germplasm was tested in the field for the selection of wilt resistant lines and the PCR based molecular markers were investigated to use Marker Assisted Selection (MAS) for selection of the desirable cultivars. In field trial, 70 % accessions were resistant to wilt disease, while the remaining 30 % have shown susceptibility to the disease. A total of 5 RAPD and 15 SSR markers were screened for molecular based characterization of wilt response. The data of molecular markers were scored by the presence (1) and absence (0) of allele and subjected to statistical analysis. The analysis was based on coefficient of molecular similarity using UPGMA and sorted the germplasm into two groups based on disease response. Among the total used RAPD/SSR primers, only TA194 SSR marker showed linkage to wilt resistant locus at 85 % probability. The linkage of a marker was reconfirmed by receiver operating characteristic curve. The use of the sorted wilt resistant genotypes through SSR marker TA194 can make available ample prospect in MAS breeding for yield improvement of the crop in Pakistan.     

Screening of Pig (Sus scrofa) Bactericidal Permeability-Increasing Protein (BPI) Gene as Marker for Disease Resistance

Salmonella infection can cause septicemia, acute or chronic enteritis and wasting in weaned pigs, but may occur in other age groups. The bactericidal/permeability-increasing protein (BPI) gene plays an important role in the natural defense of the host and is found to be associated with resistance/susceptibility to Salmonella infection and identified as a candidate gene for disease resistance breeding in pig. This study was conducted to screen the resistance and/or susceptibility of pigs to Salmonella infection, to determine the genotype and evaluate presence of resistant allele of the BPI gene in population of pigs, and to establish genetic data for pig breeders for the improvement of Philippine pig industry. In this study, 389 blood samples from different pig breeds were collected from pig breeder farms in the Philippines. Genomic DNA was extracted from these samples and genotyping was done by PCR-RFLP analysis using AvaII restriction enzyme. Out of 389 pigs, the genotypic frequency showed that 98.4, 1.3, and 0.3% pigs are resistant (GG), heterozygous type (AG), and susceptible (AA), respectively. The application of BPI gene as marker for disease resistance will provide information to the pig industry to implement strategies for the identification of Salmonella infection-resistant pigs.     

山羊经济性状标记辅助选择的遗传效应分析

本研究以辽宁绒山羊、柴达木绒山羊和柴达木山羊3个群体共147只山羊为研究对象,运用PAGE和RAPD技术对山羊的体重、绒产量和绒细度3个性状进行了与标记基因关系的遗传分析,结果表明：EsD2-2型、LAPBB型和PA-32-2型分别为体重、绒产量和绒细度性状的优势标记基因型;可利用标记辅助预测的方法充分利用多基因座标记基因间的互作效应;在体重上,寻找到有显著选择效应的RAPD条带11个,在绒产量和绒细度上分别为9和6个;在多目标性状选择中,CY0818/A0型和OPW19/C1型为体重和绒产量的双重优势RAPD标记,CY0818/G1型为体重和绒细度的双重优势RAPD标记。Abstract: The genetic relationships between economic traits and genetic markers were studied in 147 goats including Chaidamu goat (CS), Chaidamu Cashmere goat (CRS) and Liaoning Cashmere goat (LRS) in Qinghai province, China. CRS was the population of CS×LRS crossbred. The results showed as follows: the selection reaction of these blood protein polymorphisic loci were great, such as EsD, LAP and PA-3; and EsD2-2, LAPBB and PA-32-2 were the superior marker genotypes on body weight ,Cashmere yield and Cashmere fineness respectively by Least Square method. The interaction between marker genotypes at double loci was found frequently, and their ratio between interaction variance component and genetic variance was higher. With the method of marker assisted prediction( MAP), some interaction effect could be used effectively in the crossbreed population. On the aspect of random amplified polymorphic DNA (RAPD), the number of the superior RAPD marker bands were 11 on body weight trait, 9 and 6 RAPD marker bands on Cashmere yield and Cashmere fineness. For multi-goal traits, CY0818/A0 type and OPW19/C1 type were superior RAPD markers of body weight and Cashmere yield, CY0818/G1 type was superior one of body weight and Cashmere fineness.     

分子标记辅助聚合两个棉纤维高强主效QTLs的选择效果

利用长江流域推广品种泗棉3号和优异纤维种质系7235为育种亲本,配置了系统育种和修饰回交聚合育种两套群体。基于来自7235的2个高强纤维主效QTL的分子标记,在上述育种群体中进行了分子标记辅助选择效率研究。高强纤维主效QTLfs1是利用(7235×TM1)F2分离群体,通过集团混合分离法检测到的,它可解释纤维强度表型变异的30%以上。高强纤维主效QTLfs2最初是利用(HS42710×TM1)F2分离群体检测到的,它可解释纤维强度表型变异的12.5%以上。进一步的研究表明,该QTL也位于7235优质系中,但与QTLfs1非等位。2套育种分离群体的2个高强纤维主效QTL的分子标记辅助选择效果表明:QTLfs1在不同环境条件下均稳定表达,它对不同遗传背景的育种群体均有显著的选择效果。尽管QTLfs2的选择效果低于QTLfs1,它在高世代育种群体中也表现较高的选择效率。利用分子标记辅助选择具有一定遗传距离的QTLfs1区间,其纤维强度的选择效率将大大增强。通过分子标记对位于不同连锁群上的2个QTL聚合选择,其中选单株的纤维强度显著提高。研究结果为利用分子标记辅助聚合优质QTL提供了成功实例。     

The Roles of Variants in Human Multidrug Resistance (MDR1) Gene and Their Haplotypes on Antiepileptic Drugs Response: A Meta-Analysis of 57 Studies

Objective

Previous studies reported the associations between the ATP-binding cassette sub-family B member 1 (ABCB1, also known as MDR1) polymorphisms and their haplotypes with risk of response to antiepileptic drugs in epilepsy, however, the results were inconclusive.

Methods

The Pubmed, Embase, Web of Science, CNKI and Chinese Biomedicine databases were searched up to July 15, 2014. Pooled odds ratios (ORs) and 95% confidence intervals (CIs) were calculated using a fixed-effects or random-effects model based on heterogeneity tests. Meta-regression and Galbraith plot analysis were carried out to explore the possible heterogeneity.

Results

A total of 57 studies involving 12407 patients (6083 drug-resistant and 6324 drug-responsive patients with epilepsy) were included in the pooled-analysis. For all three polymorphisms (C3435T, G2677T/A, and C1236T), we observed a wide spectrum of minor allele frequencies across different ethnicities. A significantly decreased risk of AEDs resistance was observed in Caucasian patients with T allele of C3435T variant, which was still significant after adjusted by multiple testing corrections (T vs C: OR=0.83, 95%CI=0.71-0.96, p=0.01). However, no significant association was observed between the other two variants and AEDs resistance. Of their haplotypes in ABCB1 gene (all studies were in Indians and Asians), no significant association was observed with AEDs resistance. Moreover, sensitivity and Cumulative analysis showed that the results of this meta-analysis were stable.

Conclusion

In summary, this meta-analysis demonstrated that effect of C3435T variant on risk of AEDs resistance was ethnicity-dependent, which was significant in Caucasians. Additionally, further studies in different ethnic groups are warranted to clarify possible roles of haplotypes in ABCB1 gene in AEDs resistance, especially in Caucasians.     

植物抗病育种中的标记辅助选择与甘蔗

抗病基因的分子标记具有稳定、准确、高效的特点,通过对基因型而不是表型的直接选择,抗病基因分子标记应用于辅助选择可大大加快常规育种进程,提高育种效率。本文评述了植物抗病育种中标记辅助选择的发展概况,介绍了各种DNA分子标记技术及植物抗病基因连锁标记的筛选方法,重点介绍了甘蔗抗病基因分子标记研究的现状,展望了分子标记辅助选择在甘蔗抗病育种中的前景。     

Peroxidase and Poly-Phenol Oxidase in Brassica juncea Plants Infected with Macrophomina phaseolina (Tassai) Goid. and their Implication in Disease Resistance

Studies on the peroxidase and poly-phenol oxidase activity in relatively resistant and susceptible strains of Brassica juncea at sequential intervals after inoculation with different isolates of Macrophomina phaseolina revealed that, fungus infected tissues had relatively higher activities of these oxidative enzymes in comparison to healthy plants, and tissues inoculated with ‘Weakly Virulent’ isolates always exhibited higher activity in comparison to ‘Moderately’, ‘Highly’ and ‘MostHighly Virulent’ isolates. At the early stages of the infection on 6th day, resistant plants showed higher activities in comparison to their susceptible counterparts. Very low activity of these enzymes could be recorded in healthy plants. Findings of this, study indicate the possible involvement of these oxidative enzymes in the resistance of this disease.     

Exploring Regional Variation in Roost Selection by Bats: Evidence from a Meta-Analysis

Background and Aims

Tree diameter, tree height and canopy closure have been described by previous meta-analyses as being important characteristics in roost selection by cavity-roosting bats. However, size and direction of effects for these characteristics varied greatly among studies, also referred to as heterogeneity. Potential sources of heterogeneity have not been investigated in previous meta-analyses, which are explored by correlating additional covariates (moderator variables). We tested whether effect sizes from 34 studies were consistent enough to reject the null hypothesis that trees selected by bats did not significantly differ in their characteristics from randomly selected trees. We also examined whether heterogeneity in tree diameter effect sizes was correlated to moderator variables such as sex, bat species, habitat type, elevation and mean summer temperature.

Methods

We used Hedges’ g standardized mean difference as the effect size for the most common characteristics that were encountered in the literature. We estimated heterogeneity indices, potential publication bias, and spatial autocorrelation of our meta-data. We relied upon meta-regression and multi-model inference approaches to evaluate the effects of moderator variables on heterogeneity in tree diameter effect sizes.

Results

Tree diameter, tree height, snag density, elevation, and canopy closure were significant characteristics of roost selection by cavity-roosting bats. Size and direction of effects varied greatly among studies with respect to distance to water, tree density, slope, and bark remaining on trunks. Inclusion of mean summer temperature and sex in meta-regressions further explained heterogeneity in tree diameter effect sizes.

Conclusions

Regional differences in roost selection for tree diameter were related to mean summer temperature. Large diameter trees play a central role in roost selection by bats, especially in colder regions, where they are likely to provide a warm and stable microclimate for reproductive females. Records of summer temperature fluctuations inside and outside tree cavities that are used by bats should be included in future research.     

Soluble CD147 (BSG) as a Prognostic Marker in Multiple Myeloma

CD147 (basigin, BSG) is a membrane-bound glycoprotein involved in energy metabolism that plays a role in cancer cell survival. Its soluble form is a promising marker of some diseases, but it is otherwise poorly studied. CD147 is overexpressed in multiple myeloma (MM) and is known to affect MM progression, while its genetic variants are associated with MM survival. In the present study, we aimed to assess serum soluble CD147 (sCD147) expression as a potential marker in MM. We found that sCD147 level was higher in MM patients compared to healthy individuals. It was also higher in patients with more advanced disease (ISS III) compared to both patients with less advanced MM and healthy individuals, while its level was observed to drop after positive response to treatment. Patients with high sCD147 were characterized by worse progression-free survival. sCD147 level did not directly correlate with bone marrow CD147 mRNA expression. In conclusion, this study suggests that serum sCD147 may be a prognostic marker in MM.     

Multiple Resistance and Biochemical Mechanisms of Dicofol Resistance in Tetranychus urticae (Acari: Tetranychidae)

A field colony of Tetranychus urticae (Koch) resistant to dicofol was selected with dicofol successively for 20 generations to produce the DR-20 strain. Resistance and multiple resistance levels of the DR-20 strain to 15 acaricides were determined using a spray bioassay. The DR-20 strain was extremely resistant to dicofol [resistance ratio (RR), 465]. The strain showed extremely strong resistance to acrinathrin (RR, 373) and benzoximate (RR, 197) and strong resistance to bromopropylate (RR, 136), fenbutatin oxide (RR, 65), fenpropathrin (RR, 70), fenpyroximate (RR, 68), and pyridaben (RR, 63). A RR of 11–29 was observed with abamectin, fenazaquin, milbemectin, propagite, and tebufenpyrad. The DR-20 strain exhibited low levels of resistance (RR<3) to azocyclotin and chlorfenapyr. In comparative assays with detoxifying enzymes, the DR-20 strain showed 4.7-fold higher activity in p-nitroanisole-O-demethylation and 1.6-fold higher activities in both α- and β-naphthyl acetate hydrolysis. Synergist experiments with different metabolic inhibitors revealed that piperonyl butoxide, iprobenfos, triphenyl phosphate, and 4, 4-dichloro-α-methyl benzhydrol had little or no synergistic activity in the susceptible and DR-20 strains. These results suggest that employment of certain acaricides with little multiple resistance will be useful for the management of dicofol resistance in the field.     

Resistance to Tellurite as a Selection Marker for Genetic Manipulations of Pseudomonas Strains

Resistance to the toxic compound potassium tellurite (Tel^r) has been employed as a selection marker built into a set of transposon vectors and broad-host-range plasmids tailored for genetic manipulations of Pseudomonas strains potentially destined for environmental release. In this study, the activated Tel^r determinants encoded by the cryptic telAB genes of plasmid RK2 were produced, along with the associated kilA gene, as DNA cassettes compatible with cognate vectors. In one case, the Tel^r determinants were assembled between the I and O ends of a suicide delivery vector for mini-Tn5 transposons. In another case, the kilA and telAB genes were combined with a minimal replicon derived from a variant of Pseudomonas plasmid pPS10, which is able to replicate in a variety of gram-negative hosts and is endowed with a modular collection of cloning and expression assets. Either in the plasmid or in the transposon vector, the Tel^r marker was combined with a 12-kb DNA segment of plasmid pWW0 of Pseudomonas putida mt-2 encoding the upper TOL pathway enzymes. This allowed construction of antibiotic resistance-free but selectable P. putida strains with the ability to grow on toluene as the sole carbon source through an ortho-cleavage catabolic pathway.     

Whole Genome Sequencing of Elite Rice Cultivars as a Comprehensive Information Resource for Marker Assisted Selection

Current advances in sequencing technologies and bioinformatics revealed the genomic background of rice, a staple food for the poor people, and provided the basis to develop large genomic variation databases for thousands of cultivars. Proper analysis of this massive resource is expected to give novel insights into the structure, function, and evolution of the rice genome, and to aid the development of rice varieties through marker assisted selection or genomic selection. In this work we present sequencing and bioinformatics analyses of 104 rice varieties belonging to the major subspecies of Oryza sativa. We identified repetitive elements and recurrent copy number variation covering about 200 Mbp of the rice genome. Genotyping of over 18 million polymorphic locations within O. sativa allowed us to reconstruct the individual haplotype patterns shaping the genomic background of elite varieties used by farmers throughout the Americas. Based on a reconstruction of the alleles for the gene GBSSI, we could identify novel genetic markers for selection of varieties with high amylose content. We expect that both the analysis methods and the genomic information described here would be of great use for the rice research community and for other groups carrying on similar sequencing efforts in other crops.     

体外选择与体细胞无性系变异在抗病育种中的应用

本文综述了体外选择与体细胞无性系变异进行抗病育种的方法、影响因素、优缺点及研究进展等。 Application of in vitro Selection and Somaclonal Variation in Improvement of Disease Resistance LIU Jin-ping,ZHENG Cheng-mu South China University of Tropical Agriculture,Agronomy College Zhanzhou,Hainan 571737,China Abstract:Techniques,influencing factors,advantages,disadvantages and advances in improvement of disease resistance using in vitro selection and somaclonal variation were summarized. Key words：in vitro selection;somaclonal variation;improvement of disease resistance     

Evidence for Directional Selection at a Novel Major Histocompatibility Class I Marker in Wild Common Frogs (Rana temporaria) Exposed to a Viral Pathogen (Ranavirus)

Whilst the Major Histocompatibility Complex (MHC) is well characterized in the anuran Xenopus, this region has not previously been studied in another popular model species, the common frog (Rana temporaria). Nor, to date, have there been any studies of MHC in wild amphibian host-pathogen systems. We characterise an MHC class I locus in the common frog, and present primers to amplify both the whole region, and specifically the antigen binding region. As no more than two expressed haplotypes were found in over 400 clones from 66 individuals, it is likely that there is a single class I locus in this species. This finding is consistent with the single class I locus in Xenopus, but contrasts with the multiple loci identified in axolotls, providing evidence that the diversification of MHC class I into multiple loci likely occurred after the Caudata/Anura divergence (approximately 350 million years ago) but before the Ranidae/Pipidae divergence (approximately 230 mya). We use this locus to compare wild populations of common frogs that have been infected with a viral pathogen (Ranavirus) with those that have no history of infection. We demonstrate that certain MHC supertypes are associated with infection status (even after accounting for shared ancestry), and that the diseased populations have more similar supertype frequencies (lower F_ST) than the uninfected. These patterns were not seen in a suite of putatively neutral microsatellite loci. We interpret this pattern at the MHC locus to indicate that the disease has imposed selection for particular haplotypes, and hence that common frogs may be adapting to the presence of Ranavirus, which currently kills tens of thousands of amphibians in the UK each year.     

Epsps基因为筛选标记的多基因抗虫表达载体构建

目的:为了获得水稻的广谱抗虫性,同时也避免由潮霉素抗性基因引起的安全性问题.构建以抗除草剂基因(Epsps 基因)为筛选标记的多基因抗虫植物表达载体 pCTSK.方法:以双元载体pCAMBIA1300为基础,将潮霉素抗性基因hpt替换成携带烟草叶绿体转运肽序列TSP的草甘膦抗性突变基因aroAM12(编码细菌5-烯醇式丙酮酸莽草酸-3-磷酸合成酶Epsps)作为筛选标记基因,获得中间表达载体pCISM1300.然后再连接上3个抗虫基因(马铃薯蛋白酶抑制剂基因Pin-Ⅱ、苏云金杆菌毒蛋白基因Bt cryI(A)及雪花莲外源凝集素基因 CNA)的完整表达片段(包含各自的启动子和终止子).结果:通过PCR方法和酶切方法鉴定已成功地构建了该表达载体;通过不同实验方案的数据分析,得出在载体构建的大分子连接中优化的一次连接法连接效率高于二次连接法的结论.     

The Effect of Disease Modifying Therapies on Disease Progression in Patients with Relapsing-Remitting Multiple Sclerosis: A Systematic Review and Meta-Analysis

Importance

A number of officially approved disease-modifying drugs (DMD) are currently available for the early intervention in patients with relapsing-remitting multiple sclerosis (RRMS). The aim of the present study was to systematically evaluate the effect of DMDs on disability progression in RRMS

Methods

We performed a systematic review on MEDLINE and SCOPUS databases to include all available placebo-controlled randomized clinical trials (RCTs) of RRMS patients that reported absolute numbers or percentages of disability progression during each study period. Observational studies, case series, case reports, RCTs without placebo subgroups and studies reporting the use of RRMS therapies that are not still officially approved were excluded. Risk ratios (RRs) were calculated in each study protocol to express the comparison of disability progression in RRMS patients treated with a DMD and those RRMS patients receiving placebo. The mixed-effects model was used to calculate both the pooled point estimate in each subgroup and the overall estimates.

Results

DMDs for RRMS were found to have a significantly lower risk of disability progression compared to placebo (RR = 0.72, 95%CI: 0.66–0.79; p<0.001), with no evidence of heterogeneity or publication bias. In subsequent subgroup analyses, neither dichotomization of DMDs as “first” and “second” line RRMS therapies [(RR = 0.72, 95% CI = 0.65–0.80) vs. (RR = 0.72, 95% = 0.57–0.91); p = 0.96] nor the route of administration (injectable or oral) [RR = 0.75 (95% CI = 0.64–0.87) vs. RR = 0.74 (95% CI = 0.66–0.83); p = 0.92] had a differential effect on the risk of disability progression. Either considerable (5–20%) or significant (>20%) rates of loss to follow-up were reported in many study protocols, while financial and/or other support from pharmaceutical industries with a clear conflict of interest on the study outcomes was documented in all included studies.

Conclusions

Available DMD are effective in reducing disability progression in patients with RRMS, independently of the route of administration and their classification as “first” or “second” line therapies. Attrition bias needs to be taken into account in the interpretation of these findings.