Tree Genetics & Genomes最新文献_第2页

Prediction and mapping the productivity of eucalyptus clones with environmental covariates 利用环境协变量预测和绘制桉树克隆的生产力图谱

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-07-13 DOI: 10.1007/s11295-024-01656-8

Leonardo Oliveira Silva da Costa, Izabel Christina Gava de Souza, Aline Cristina Miranda Fernandes, Aurélio Mendes Aguiar, Flávia Maria Avelar Gonçalves, Evandro Novaes

{"title":"Prediction and mapping the productivity of eucalyptus clones with environmental covariates","authors":"Leonardo Oliveira Silva da Costa, Izabel Christina Gava de Souza, Aline Cristina Miranda Fernandes, Aurélio Mendes Aguiar, Flávia Maria Avelar Gonçalves, Evandro Novaes","doi":"10.1007/s11295-024-01656-8","DOIUrl":"https://doi.org/10.1007/s11295-024-01656-8","url":null,"abstract":"The quantitative nature of wood production poses a challenge for breeders. The complex interaction of genotypes with environments (G×E) makes cultivars recommendation difficult. Our objective was to model the G×E interaction using environmental covariates and map the adaptability of commercial Eucalyptus clones based on a geographic information system (GIS) across important plantation regions in Brazil. To achieve this, a productivity dataset with 13,483 stands of six commercial clones was utilized. The effects of geography, soil and climate covariates on clone yield were modeled using partial least squares regression, with data from WorldClim and SoilGrids databases. Using the models for each clone, yield maps were generated at a spatial resolution of approximately 5 km². Then, cultivar recommendation was made through a pixel-by-pixel comparison of predicted yield values among the clones. The covariates that most affected the performance of the clones were annual rainfall, rainfall of the driest month, rainfall of the driest quarter, maximum temperature of the hottest month and average temperature of the wettest quarter. Thus, G×E modeling based on environmental covariates combined with GIS enables a large increase in the resolution of cultivar recommendations by mapping the adaptability of genotypes in each site.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-07-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141613676","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

A meta-analysis on the effects of marker coverage, status number, and size of training set on predictive accuracy and heritability estimates from genomic selection in tree breeding 标记覆盖率、状态数和训练集大小对树木育种中基因组选择的预测准确性和遗传率估算的影响的荟萃分析

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-06-17 DOI: 10.1007/s11295-024-01653-x

Jean Beaulieu, Patrick R.N. Lenz, Jean-Philippe Laverdière, Simon Nadeau, Jean Bousquet

{"title":"A meta-analysis on the effects of marker coverage, status number, and size of training set on predictive accuracy and heritability estimates from genomic selection in tree breeding","authors":"Jean Beaulieu, Patrick R.N. Lenz, Jean-Philippe Laverdière, Simon Nadeau, Jean Bousquet","doi":"10.1007/s11295-024-01653-x","DOIUrl":"https://doi.org/10.1007/s11295-024-01653-x","url":null,"abstract":"Genomic selection (GS) is increasingly used in tree breeding because of the possibility to hasten breeding cycles, increase selection intensity or facilitate multi-trait selection, and to obtain less biased estimates of quantitative genetic parameters such as heritability. However, tree breeders are aiming to obtain accurate estimates of such parameters and breeding values while optimizing sampling and genotyping costs. We conducted a metadata analysis of results from 28 GS studies totalling 115 study-traits. We found that heritability estimates obtained using DNA marker-based information for a variety of traits and species were not significantly related to variation in the total number of markers ranging from about 1500 to 116 000, nor by the marker density, ranging from about 1 to 60 markers/centimorgan, nor by the status number of the breeding populations ranging from about 10 to 620, nor by the size of the training set ranging from 236 to 2458. However, the predictive accuracy of breeding values was generally higher when the status number of the breeding population was smaller, which was expected given the higher level of relatedness in small breeding populations, and the increased ability of a given number of markers to trace the long-range linkage disequilibrium in such conditions. According to expectations, the predictive accuracy also increased with the size of the training set used to build marker-based models. Genotyping arrays with a few to many thousand markers exist for several tree species and with the actual costs, GS could thus be efficiently implemented in many more tree breeding programs, delivering less biased genetic parameters and more accurate estimates of breeding values.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-06-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141500792","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genetic mapping of two quantitative resistance loci to Venturia nashicola in an interspecific pear family 一个梨种间家族对纳希氏病毒两个定量抗性位点的遗传制图

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-05-28 DOI: 10.1007/s11295-024-01650-0

Kyungho Won, Eu Ddeum Choi, Keumsun Kim, Il Sheob Shin, Seongsig Hong, Cécile Segonzac, Kee Hoon Sohn, Cecilia H. Deng, Lester Brewer, David Chagné, Vincent G. M. Bus

{"title":"Genetic mapping of two quantitative resistance loci to Venturia nashicola in an interspecific pear family","authors":"Kyungho Won, Eu Ddeum Choi, Keumsun Kim, Il Sheob Shin, Seongsig Hong, Cécile Segonzac, Kee Hoon Sohn, Cecilia H. Deng, Lester Brewer, David Chagné, Vincent G. M. Bus","doi":"10.1007/s11295-024-01650-0","DOIUrl":"https://doi.org/10.1007/s11295-024-01650-0","url":null,"abstract":"Pear scab is a major disease of pear worldwide and is caused by two distinct species that are aligned with different commercial Pyrus species: Venturia pirina with European pear (P. communis) and V. nashicola with Asian pear species P. pyrifolia, P. ussuriensis and P. X bretschneideri. As these host-pathogen systems are mutually exclusive, interspecific pear breeding provides an avenue for breeding new scab-resistant cultivars. Here we describe the genetic mapping of resistance to V. nashicola in a pear progeny between interspecific pear selection P019R045T042 and ‘Shinko’ (P. pyrifolia) consisting of 274 seedlings, which was phenotyped twice with V. nashicola inoculum prepared from scab-infected leaves collected from trees of susceptible ‘Niitaka’ (P. pyrifolia). A set of 613 polymorphic DNA markers were selected from the apple and pear Illumina Infinium® II 9K single nucleotide polymorphism array and genotyping-by-sequencing for the creation of the parental genetic maps with JoinMap v4.1. Using the Interval Mapping module in MapQTL v6.0 software, two significant quantitative trait loci were detected in P019R045T042: one on linkage group (LG) 7 and another on LG10, which we name Rvn5 and Rvn6, respectively. Both Rvn5 and Rvn6 displayed weak additive effects for pear scab (V. nashicola) resistance when both loci worked together in this family. They will contribute to more strong resistance based on gene pyramiding through marker-assisted selections for the introduction of non-host resistance into both Asian and European pears through interspecific hybridization.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-05-28","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141172312","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Resilient forests for the future 未来的弹性森林

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-05-25 DOI: 10.1007/s11295-024-01651-z

Annika Perry, F. Aravanopoulos, Katharina Birgit Budde, Ole Kim Hansen, Christian Rellstab, Hilke Schroeder, A. Curtu

引用次数: 0

Genetic diversity and population structure of Rubroshorea curtisii, a hill dipterocarp species: implications for conservation 山地双子叶植物 Rubroshorea curtisii 的遗传多样性和种群结构：对保护的影响

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-05-15 DOI: 10.1007/s11295-024-01649-7

Chin Hong Ng, Kevin Kit Siong Ng, Soon Leong Lee, Nur Nabilah Alias, Hazwani Humaira’ Zakaria, Lee Hong Tnah, Chai Ting Lee, Nurul-Farhanah Zakaria, Khairunnisa M. Mamat

{"title":"Genetic diversity and population structure of Rubroshorea curtisii, a hill dipterocarp species: implications for conservation","authors":"Chin Hong Ng, Kevin Kit Siong Ng, Soon Leong Lee, Nur Nabilah Alias, Hazwani Humaira’ Zakaria, Lee Hong Tnah, Chai Ting Lee, Nurul-Farhanah Zakaria, Khairunnisa M. Mamat","doi":"10.1007/s11295-024-01649-7","DOIUrl":"https://doi.org/10.1007/s11295-024-01649-7","url":null,"abstract":"Forests help to reduce global warming by capturing and storing atmospheric carbon. Understanding the genetics of keystone species at a population level is vital for the management and sustainable utilization of forest genetic resources. A comprehensive population genetics study was carried out on Rubroshorea curtisii, an important widespread hill dipterocarp species in Peninsular Malaysia. A total of 41 populations across its distribution range in Peninsular Malaysia were collected to elucidate the genetic diversity and ultimately provide management guidelines for this species. The population samples were analysed using 10 polymorphic microsatellite loci and sequenced with three chloroplast DNA (cpDNA) regions. A total of 145 alleles were derived from the microsatellite loci, and 21 haplotypes were identified based on 1,113 bp of concatenated cpDNA sequences. The populations showed moderately high genetic diversity (mean HE = 0.627 for microsatellite gene diversity and HT = 0.574 for average haplotype diversity) but low genetic differentiation (FST = 0.036). Using Bayesian clustering, the studied populations can be divided into two groups, one of which shows further substructuring. Further sub-structuring in Cluster 1 led to sub-clustering of 1a and 1b. Bottleneck analysis did not detect any recent bottleneck events. Based on our findings, priority areas for in situ and ex situ conservation and minimum population size are recommended for the sustainable utilization of R. curtisii.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-05-15","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141063772","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Oak genomics for nature-based solutions: shaping future forests and resilient landscapes in Canada 基于自然解决方案的橡树基因组学：塑造加拿大未来的森林和弹性景观

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-05-01 DOI: 10.1007/s11295-024-01645-x

Lisa Tischenko, Martin Williams, Ian DeMerchant, Kishan Sambaraju, Melanie Zacharias, Raju Soolanayakanahally, Guillaume Otis-Prudhomme, Nathalie Isabel, Ilga Porth

{"title":"Oak genomics for nature-based solutions: shaping future forests and resilient landscapes in Canada","authors":"Lisa Tischenko, Martin Williams, Ian DeMerchant, Kishan Sambaraju, Melanie Zacharias, Raju Soolanayakanahally, Guillaume Otis-Prudhomme, Nathalie Isabel, Ilga Porth","doi":"10.1007/s11295-024-01645-x","DOIUrl":"https://doi.org/10.1007/s11295-024-01645-x","url":null,"abstract":"To preserve biodiversity and maintain ecosystem services provided by trees in the course of climate change, it is essential to consider challenging tree species, which are less studied primarily due to a lack of investment compared to commercial species. Species of the genus Quercus present an interesting case because of their economic and ecological importance, and their syngameon biology. As a model for exploring ecological diversification, and with recent advances in forest genomics, knowledge, data, and genomic resources for oak have accumulated and are summarized in this review to foster oaks as potential candidate species for future reforestation programs in Canadian natural, peri-urban, and urban ecosystems. We summarize the state of current genomic research in oak and the accompanying opportunities genomics can provide to achieve the potential of oak silviculture in Canada. Further, we highlight the socio-economic benefits of planting oaks and genomic tools for the development of a traceability system along the value chain. Finally, we discuss some of the remaining challenges to successfully integrate oaks into different forest management programs. In light of their increased drought resistance, oak species exhibit a strong potential as viable choices for future forests, resilient agricultural landscapes, and urban areas. By leveraging the progress made in oak genomics and the new applications that have been developed for commercial species, we can foster the successful management of oak genetic resources for the production of suitable seedlings, thereby aiding Canada in its ambitious pursuit of planting two billion trees to combat climate change.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140840425","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Genetic diversity analysis of macadamia germplasm in China based on whole-genome resequencing 基于全基因组重测序的中国澳洲坚果种质遗传多样性分析

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-04-27 DOI: 10.1007/s11295-024-01648-8

Zhiqiang Li, Chao Wu, Jing Ma, Jianjian Geng, Liang Tao, Xiyong He, Lidan Gong

{"title":"Genetic diversity analysis of macadamia germplasm in China based on whole-genome resequencing","authors":"Zhiqiang Li, Chao Wu, Jing Ma, Jianjian Geng, Liang Tao, Xiyong He, Lidan Gong","doi":"10.1007/s11295-024-01648-8","DOIUrl":"https://doi.org/10.1007/s11295-024-01648-8","url":null,"abstract":"Macadamia (Macadamia integrifolia, and M. tetraphylla) production has increased rapidly in China over the past two decades. However, our understanding of the genetic diversity and genomic background of available macadamia germplasm resources remains limited. Here, we conducted whole genome resequencing of 208 macadamia accessions in a macadamia germplasm from China. In all, 1,110.83 Gb of clean reads and 458,205,696 single nucleotide polymorphisms (SNPs) were identified, including 5,470,885 high-quality SNPs. The overall genetic diversity of 208 macadamia accessions showed nucleotide diversity (Pi), expected heterozygosity (He), and observed heterozygosity (Ho) values of 1.716 × 10–3, 0.270, and 0.202, respectively. Australian germplasm generally possessed the highest genetic diversity, followed by Chinese germplasm, with macadamia germplasm resources introduced from the United States exhibiting the lowest genetic diversity. Furthermore, both phylogenetic and PCA analyses consistently clustered American accessions together. Genetic structure analysis divided the 208 accessions into nine groups, with moderate to high genetic differentiation found between different groups. These findings and genomic resources obtained from this study will be crucial for the strategic utilization of macadamia germplasm and will significantly contribute to future genome-wide associate studies.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-04-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140809548","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Characterization of the actin (ACT) family in Rosaceae and role of PbrACT1 in pear pollen tube growth 蔷薇科肌动蛋白（ACT）家族的特征及 PbrACT1 在梨花粉管生长中的作用

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-04-09 DOI: 10.1007/s11295-024-01647-9

Xueying Liu, Hao Zhang, Chao Tang, Shouzheng Lv, Shaoling Zhang, Juyou Wu, Peng Wang

{"title":"Characterization of the actin (ACT) family in Rosaceae and role of PbrACT1 in pear pollen tube growth","authors":"Xueying Liu, Hao Zhang, Chao Tang, Shouzheng Lv, Shaoling Zhang, Juyou Wu, Peng Wang","doi":"10.1007/s11295-024-01647-9","DOIUrl":"https://doi.org/10.1007/s11295-024-01647-9","url":null,"abstract":"The actin (ACT) family genes are essential for plant growth and development. However, the evolution and function of the ACT family within the Rosaceae species, particularly in pear, remain poorly understood. Here, we identified 41 ACT genes across five Rosaceae species based on phylogenetic and structural features that can be categorized into two primary groups: subfamily I (reproductive) and II (vegetative). Evolutionary analysis suggests that purifying selection played a crucial role in the evolution of the ACT family in Rosaceae, and whole genome duplication (WGD) and dispersed duplication led to the expansion of ACT genes. The pear genome contains twelve ACT genes, which can be classified into two groups based on their phylogeny and expression patterns: reproductive (PbrACT1-5) and vegetative (PbrACT6-12), further validating the reliability of the ACT family classification in Rosaceae. Expression analysis of twelve PbrACT genes across various pear tissues indicated that five genes from subfamily I (PbrACT1-5) were predominantly expressed in pollen tubes, with PbrACT1 exhibiting the highest level of expression. Knockdown of PbrACT1 expression in pear pollen tubes significantly diminished F-actin levels, triggered F-actin depolymerization, and resulted in pollen tube growth inhibition, indicating that PbrACT1 is essential for the formation of the microfilament skeleton during pear pollen tube growth. Overall, this study offers significant insights into the evolution and function of ACT genes in Rosaceae and enhances our understanding of PbrACT in microfilament formation in pear pollen tubes.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-04-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140562861","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Breakdown of self-incompatibility of apple (Malus × domestica Borkh.) induced by gamma-ray mutagenesis 伽马射线诱变引起的苹果（Malus × domestica Borkh.）自相容性的破坏

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-03-27 DOI: 10.1007/s11295-024-01644-y

Kazuyuki Abe, Shigeki Moriya, Sogo Nishio, Kazuma Okada, Taku Shimizu, Takashi Haji

{"title":"Breakdown of self-incompatibility of apple (Malus × domestica Borkh.) induced by gamma-ray mutagenesis","authors":"Kazuyuki Abe, Shigeki Moriya, Sogo Nishio, Kazuma Okada, Taku Shimizu, Takashi Haji","doi":"10.1007/s11295-024-01644-y","DOIUrl":"https://doi.org/10.1007/s11295-024-01644-y","url":null,"abstract":"Self-compatibility (SC) in a naturally self-incompatible fruit tree species is an incredibly interesting trait for breeding objectives and a valuable tool to investigate the mechanism of the gametophytic self-incompatibility system. We focused on an apple (Malus × domestica Borkh.), in which studies on the SC remain largely unexplored because of a lack of spontaneous and/or induced self-compatible mutants, and performed gamma-ray mutagenesis and succeeded in producing several pollen-part self-compatible mutants. We revealed that SC in the mutants was not caused by a dysfunctional pollen S factor in either of the S-haplotypes but presumably by a translocation of an S-haplotype to a non-homologous chromosome, which allowed the mutants to produce S-heteroallelic pollen grains that overcome self-incompatibility through the competitive interaction between the two different S-factors in the pollen grain. The results from our study demonstrate that duplication of the pollen-S in a pollen grain causes the breakdown of the pollen function in Malus, like Pyrus of Rosaceae and Solanaceae, but not in the mutation of the pollen-S itself, like Prunus. The mutants and our finding will be useful for apple breeding programs.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-03-27","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140313681","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The mitochondrial genome sequence of Syagrus coronata (Mart.) Becc. (Arecaceae) is characterized by gene insertion within intergenic spaces Syagrus coronata (Mart.) Becc.的线粒体基因组序列具有在基因间插入基因的特征。(Arecaceae ）线粒体基因组序列的特点是基因插入到基因间隙中

IF 2.4 3区生物学

Tree Genetics & Genomes Pub Date : 2024-03-26 DOI: 10.1007/s11295-024-01643-z

{"title":"The mitochondrial genome sequence of Syagrus coronata (Mart.) Becc. (Arecaceae) is characterized by gene insertion within intergenic spaces","authors":"","doi":"10.1007/s11295-024-01643-z","DOIUrl":"https://doi.org/10.1007/s11295-024-01643-z","url":null,"abstract":"<h3>Abstract</h3> Syagrus coronata (Mart.) Becc. belongs to the Arecaceae family. It is a species native to Brazil of ecological, social, and economic importance. To date, there are few mitochondrial genomes in Arecaceae (Cocos nucifera and Phoenix dactylifera L.), and studies of the mitochondrial genome are essential to understand the evolution of the Arecaceae family. This study reports and compares the newly sequenced genome of S. coronata. Single-end and paired-end reads were used to obtain de novo contigs. The mitochondrial contigs were selected using C. nucifera as a reference and were merged using mate paired-end reads. The mitochondrial genome showed 642,817 bp, circular structure, containing 73 predicted functional genes, including four ribosomal RNA (rRNA) genes, 27 transfer RNA (tRNA) genes, and 42 coding protein genes. Large chloroplast genomic fragments were identified in the mitochondrial genome, and large DNA repetitive fragments were into intergenic space regions. Arecaceae mitochondrial genomes showed partial similarities in size, genome structure, and gene content. However, they exhibited numerous rearrangements. In summary, (1) we sequenced the mitochondrial genome of S. coronata and compared with other mitogenomes of Arecaceae. (2) Genomic rearrangements and gene transfer have been identified from the chloroplast genome to the mitochondrial genome. (3) The mitochondrial genome of Arecareae showed similarities in size, structure, and gene content. (4) The expansion of intergenic space size occurs due to the insertion of genes originating from the nucleus.","PeriodicalId":23335,"journal":{"name":"Tree Genetics & Genomes","volume":null,"pages":null},"PeriodicalIF":2.4,"publicationDate":"2024-03-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140313539","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0