polymorphic information content (PIC)

  • 文章类型: Journal Article
    6个犬种的遗传多样性分析,包括CadeBetiar(CB),CadeBou(CBOU),PodencoIbicenco(PI),Ca评分器(CR),CaMè(CM),和CadeConills(CC),揭示了深刻的发现。CB表现出最高的等位基因平均数(6.17)和杂合性值,在五个标记中观察到与Hardy-Weinberg平衡(HWE)的显著偏差,表明种族内遗传多样性高(平均观察杂合性(Ho)=0.754,预期杂合性(He)=0.761)。相比之下,CBOU呈现最低的平均等位基因数(5.05)和杂合性值,加上中等的多态信息含量(PIC)值和中等水平的种族内遗传多样性(平均Ho=0.313,He=0.394)。PI表现出中等的遗传多样性,平均有5.75个等位基因和高度信息的PIC值,而CR表现出稳健的遗传多样性,平均为6.61个等位基因,偏离平衡,表明近亲繁殖的潜在风险(平均Ho=0.563,He=0.658)。CM表现出适度的遗传多样性和对平衡的偏离,类似于CBOU,平均6.5个等位基因和中等PIC值(平均Ho=0.598,He=0.676)。相反,CC显示出更广泛的等位基因多样性和与平衡的偏差(平均Ho=0.611,He=0.706),表明了更多样化的遗传背景。种族间分析强调了品种之间不同的遗传差异,强调明智的育种决策和积极的遗传管理策略以保护多样性的重要性,促进品种健康,并确保所有研究品种的长期可持续性。
    The genetic diversity analysis of six dog breeds, including Ca de Bestiar (CB), Ca de Bou (CBOU), Podenco Ibicenco (PI), Ca Rater (CR), Ca Mè (CM), and Ca de Conills (CC), reveals insightful findings. CB showcases the highest mean number of alleles (6.17) and heterozygosity values, with significant deviations from Hardy-Weinberg equilibrium (HWE) observed in five markers, indicating high intra-racial genetic diversity (average observed heterozygosity (Ho) = 0.754, expected heterozygosity (He) = 0.761). In contrast, CBOU presents the lowest mean number of alleles (5.05) and heterozygosity values, coupled with moderate polymorphic information content (PIC) values and a moderate level of intra-racial genetic diversity (average Ho = 0.313, He = 0.394). PI demonstrates moderate genetic diversity with an average of 5.75 alleles and highly informative PIC values, while CR displays robust genetic diversity with an average of 6.61 alleles and deviations from equilibrium, indicating potential risks of inbreeding (average Ho = 0.563, He = 0.658). CM exhibits moderate genetic diversity and deviations from equilibrium, similar to CBOU, with an average of 6.5 alleles and moderate PIC values (average Ho = 0.598, He = 0.676). Conversely, CC shows a wider range of allelic diversity and deviations from equilibrium (average Ho = 0.611, He = 0.706), suggesting a more diverse genetic background. Inter-racial analysis underscores distinct genetic differentiation between breeds, emphasizing the importance of informed breeding decisions and proactive genetic management strategies to preserve diversity, promote breed health, and ensure long-term sustainability across all breeds studied.
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  • 文章类型: Journal Article
    Studies on genetic diversity could enhance taxonomic authentication and evolutionary relationship among the species of Ocimum. Therefore, diversity among 36 Ocimum accessions representing species from different regions of world were analyzed using Start Codon-Targeted Polymorphism (SCoT) and inter-simple sequences repeat (ISSR) marker. Marker systems used in this study was potentially targeted the different regions of the genome and included 18 SCoT and 15 ISSR primers, which showed successful amplification profile for Ocimum. Between these two, SCoT revealed the highest mean value of percentage of Polymorphism (84.6%), polymorphic information content (PIC, 0.65), and resolving power (Rp, 8.80), which were higher than ISSR. A total of 140 and 111 amplicons were obtained with SCoT and ISSR marker. The Mantel test indicted a significant correlation (r2 = 0.44) between ISSR and SCoT, which suggested a common genetical background among the accessions. The principal coordinate study showed the selection of different Ocimum genotypes by the cluster analysis. This study will help and support identification, genetic mapping, and molecular ecology to enhance the breeding program\'s efficiency for developing elite varieties to meet industrial demand globally. The present study is the first report of the genetic diversity, and relationship determination with SCoT-based molecular marker among Ocimum accessions.
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  • 文章类型: Journal Article
    Citrulluscolocynthis(L.)施拉德。(葫芦科)显示出高度的水果颜色变化,水果条纹图案,种皮颜色,和大小。收集了来自半干旱拉贾斯坦邦不同地区的38种C.colocynthis植物,并使用随机扩增多态性DNA(RAPD)和简单序列间重复(ISSR)标记评估了遗传多样性。在65个RAPD十聚体引物中,50个引物产生549条可评分带,其中318条具有多态性。在150-6000bp的分子大小范围内,具有扩增片段数量的多态条带模式从5(OPA-08和OPF-9)到19(OPT-20)不等。多态性百分比为22.2%(OPA-09)至83.3%(OPE-12),多态性为55.14%。在筛选出的20条ISSR引物中,13个引物产生166个扩增产物,其中99个是多态的。每个引物扩增的条带数量在9(UBC-807,802)和16(UBC-803,812)之间变化,平均条带大小在250和4000bp之间。多态性百分比从45.4%(UBC-815)到73.3%(UBC-814),多态性为65.05%。根据RAPDISSR多态性构建的树状图将种质分成四个不同的簇,变异率为72%,Jaccard的相似系数最小为0.64至0.95。还使用Mantel检验比较了RAPD和ISSR的矩阵,并获得了相关值(r=0.7947)。通过计算多态信息含量来评估RAPD和ISSR标记的辨别能力,多路复用比,标记索引,和解决力。大约。50%的RAPD和ISSR标记显示PIC值和杂合性(H)≥0.50,表明标记可提供信息。多态性较高的引物具有较高的RP,MR,和MI值。
    Citrullus colocynthis (L.) Schrad. (Cucurbitaceae) shows high levels of variation in fruit color, fruit stripe pattern, seed coat color, and size. Thirty-eight accessions of C. colocynthis plants from different parts of semi-arid Rajasthan were collected and genetic diversity was assessed using random-amplified polymorphic DNA (RAPD) and inter-simple sequence repeat (ISSR) markers. Out of 65 RAPD decamer primers, 50 primers produced 549 scorable bands of which 318 were polymorphic. Polymorphic banding patterns with the number of amplified fragments varied from 5 (OPA-08 and OPF-9) to 19 (OPT-20) in the molecular size range of 150-6000 bp. Percent polymorphism ranged from 22.2% (OPA-09) to 83.3% (OPE-12) with 55.14% polymorphism. Out of the 20 ISSR primers screened, 13 primers produced 166 amplification products, of which 99 were polymorphic. The number of bands amplified per primer varied between 9 (UBC-807, 802) and 16 (UBC-803, 812) with average band size between 250 and 4000 bp. Percent polymorphism ranged from 45.4% (UBC-815) to 73.3% (UBC-814) with 65.05% polymorphism. Dendrogram constructed on the basis of RAPD + ISSR polymorphism separated the accessions into four distinct clusters at 72% variation with Jaccard\'s similarity coefficient ranging from minimum 0.64 to 0.95. The matrices for RAPD and ISSR were also compared using Mantel\'s test and obtained correlation value (r = 0.7947). Discriminating power of RAPD and ISSR markers was assessed by calculating polymorphic information content, multiplex ratio, marker index, and resolving power. Approx. 50% RAPD and ISSR markers showed PIC value and heterozygosity (H) ≥ 0.50, indicating marker as informative. The primers that showed higher polymorphism had higher RP, MR, and MI values.
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  • 文章类型: Journal Article
    Development of highly informative markers such as simple sequence repeats (SSR) for cultivar identification and germplasm characterization and management is essential for date palms genetic studies. The present study documents the development of SSR markers and assesses genetic relationships of commonly grown date palm (Phoenix dactylifera L.) cultivars in different geographical regions of Saudi Arabia. A total of 93 novel simple sequence repeat (SSR) markers were screened for their ability to detect polymorphism in date palm. Around 71% of genomic SSRs are dinucleotide, 25% trinucleotide, 3% tetranucleotide, and 1% pentanucleotide motives and show 100% polymorphism. The Unweighted Pair Group Method with Arithmetic Mean (UPGMA) cluster analysis illustrates that cultivars trend to group according to their class of maturity, region of cultivation, and fruit color. Analysis of molecular variations (AMOVA) reveals genetic variation among and within cultivars of 27% and 73%, respectively, according to the geographical distribution of the cultivars. Developed microsatellite markers are of additional value to date palm characterization, tools which can be used by researchers in population genetics, cultivar identification, as well as genetic resource exploration and management. The cultivars tested exhibited a significant amount of genetic diversity and could be suitable for successful breeding programs. Genomic sequences generated from this study are available at the National Center for Biotechnology Information (NCBI), Sequence Read Archive (Accession numbers. LIBGSS_039019).
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