018 Occurrence of Juglans Regia Vs Juglans Sigillata In
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Evolution of Angiosperm Pollen. 7. Nitrogen-Fixing Clade1
Evolution of Angiosperm Pollen. 7. Nitrogen-Fixing Clade1 Authors: Jiang, Wei, He, Hua-Jie, Lu, Lu, Burgess, Kevin S., Wang, Hong, et. al. Source: Annals of the Missouri Botanical Garden, 104(2) : 171-229 Published By: Missouri Botanical Garden Press URL: https://doi.org/10.3417/2019337 BioOne Complete (complete.BioOne.org) is a full-text database of 200 subscribed and open-access titles in the biological, ecological, and environmental sciences published by nonprofit societies, associations, museums, institutions, and presses. Your use of this PDF, the BioOne Complete website, and all posted and associated content indicates your acceptance of BioOne’s Terms of Use, available at www.bioone.org/terms-of-use. Usage of BioOne Complete content is strictly limited to personal, educational, and non - commercial use. Commercial inquiries or rights and permissions requests should be directed to the individual publisher as copyright holder. BioOne sees sustainable scholarly publishing as an inherently collaborative enterprise connecting authors, nonprofit publishers, academic institutions, research libraries, and research funders in the common goal of maximizing access to critical research. Downloaded From: https://bioone.org/journals/Annals-of-the-Missouri-Botanical-Garden on 01 Apr 2020 Terms of Use: https://bioone.org/terms-of-use Access provided by Kunming Institute of Botany, CAS Volume 104 Annals Number 2 of the R 2019 Missouri Botanical Garden EVOLUTION OF ANGIOSPERM Wei Jiang,2,3,7 Hua-Jie He,4,7 Lu Lu,2,5 POLLEN. 7. NITROGEN-FIXING Kevin S. Burgess,6 Hong Wang,2* and 2,4 CLADE1 De-Zhu Li * ABSTRACT Nitrogen-fixing symbiosis in root nodules is known in only 10 families, which are distributed among a clade of four orders and delimited as the nitrogen-fixing clade. -
ISOLATION, CHARACTERISATION AND/OR EVALUATION of PLANT EXTRACTS for ANTICANCER POTENTIAL KARUPPIAH PILLAI MANOHARAN (M.Sc., M.Ph
ISOLATION, CHARACTERISATION AND/OR EVALUATION OF PLANT EXTRACTS FOR ANTICANCER POTENTIAL KARUPPIAH PILLAI MANOHARAN (M.Sc., M.Phil., B.Ed.,) A THESIS SUBMITTED FOR THE DEGREE OF DOCTOR OF PHILOSOPHY DEPARTMENT OF CHEMISTRY NATIONAL UNIVERSITY OF SINGAPORE 2006 Acknowledgements I wish to express my sincere gratitude and appreciation to my supervisors, Associate Prof. Yang Dai Wen and Associate Prof. Tan, Benny Kwong Huat for their advice, suggestions, constructive criticisms, critical comments and constant guidance throughout the course my study. I am very thankful to Asst. Prof. Henry, Mok Yu-Keung; his supervisor-like role throughout my research work is greatly appreciated. I am very grateful to Prof. Sim Keng Yeow for his help, support and guidance at the beginning of this course of study. I would like to thank all the technical staffs of Departments of Chemistry and Pharmacology for their superb technical assistance. My sincere thanks are due to Ms. Annie Hsu for her technical assistance at the traditional medicine and natural product research laboratory, Department of Pharmacology, Faculty of Medicine. I would like to thank Dr. Fan Sing Jong, NMR Manager for his help in the structure elucidation. I would like to thank Associate Prof. Hugh Tan Tiang Wah and Chua Keng Soon, Senior Laboratory Officer (RMBR), Herbarium, for the identification of plant materials, Eugenia grandis and Fagraea fragrans. I am very grateful to the former head Prof. Lee Hian Kee and the present head Prof. Hor Tzi Sum, Andy, Department of Chemistry for facilitating requests and approvals during the period of my study. My appreciation also goes to all my friends. -
5. JUGLANS Linnaeus, Sp. Pl. 2: 997. 1753. 胡桃属 Hu Tao Shu Trees Or Rarely Shrubs, Deciduous, Monoecious
Flora of China 4: 282–283. 1999. 5. JUGLANS Linnaeus, Sp. Pl. 2: 997. 1753. 胡桃属 hu tao shu Trees or rarely shrubs, deciduous, monoecious. Branchlets with chambered pith. Terminal buds with false-valved scales. Leaves odd-pinnate; leaflets 5–31, margin serrate or rarely entire. Inflorescences lateral or terminal on old or new growth; male spike separate from female spike, solitary, lateral on old growth, pendulous; female spike terminal on new growth, erect. Flowers anemophilous. Male flowers with an entire bract; bracteoles 2; sepals 4; stamens usually numerous, 6–40, anthers glabrous or occasionally with a few bristly hairs. Female flowers with an entire bract adnate to ovary, free at apex; bracteoles 2, adnate to ovary, free at apex; sepals 4, adnate to ovary, free at apex; style elongate with recurved branches; stigmas carinal, 2-lobed, plumose. Fruiting spike erect or pendulous. Fruit a drupelike nut with a thick, irregularly dehiscent or indehiscent husk covering a wrinkled or rough shell 2–4- chambered at base. Germination hypogeal. About 20 species: mainly temperate and subtropical areas of N hemisphere, extending into South America; three species in China. 1a. Leaflets abaxially pubescent or rarely glabrescent, margin serrate or rarely serrulate; nuts 2-chambered at base; husk indehiscent; shell rough ridged and deeply pitted .............................................................. 3. J. mandshurica 1b. Leaflets abaxially glabrous except in axils of midvein and secondary veins, margin entire to minutely serrulate; nuts 4-chambered at base; husk irregularly dehiscent into 4 valves; shell wrinkled or smooth ridged and deeply pitted. 2a. Leaflets 5–9; shell wrinkled, without prominent ridges .................................................................... -
Analysis of Phylogenetic Relationships in the Walnut Family Based on Internal Transcribed Spacer Sequences and Secondary Structures(ITS2)
Analysis of Phylogenetic Relationships in The Walnut Family Based on Internal Transcribed Spacer Sequences and Secondary Structures(ITS2) Zhongzhong Guo Tarim University Qiang Jin Tarim University Zhenkun Zhao Tarim University Wenjun Yu Tarim University Gen Li Tarim University Yunjiang Cheng Tarim University Cuiyun Wu Tarim University rui Zhang ( [email protected] ) Tarim University https://orcid.org/0000-0002-4360-5179 Research Article Keywords: Base sequence, Evolution, Juglandaceae, Ribosomal spacer, Secondary structure Posted Date: May 13th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-501634/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/23 Abstract This study aims to investigate the phylogenetic relationships within the Juglandaceae family based on the Internal Transcribed Spacer's primary sequence and secondary structures (ITS2). Comparative analysis of 51 Juglandaceae species was performed across most of the dened seven genera. The results showed that the ITS2 secondary structure's folding pattern was highly conserved and congruent with the eukaryote model. Firstly, Neighbor-joining (N.J.) analysis recognized two subfamilies: Platycaryoideae and Engelhardioideae. The Platycaryoideae included the Platycaryeae (Platycarya+ (Carya+ Annamocarya)) and Juglandeae (Juglans-(Cyclocarya + Pterocarya)). The Engelhardioideae composed the (Engelhardia+Oreomunnea+Alfaroa)). The Rhoiptelea genus was generally regarded as an outgroup when inferring the phylogeny of Juglandaceae. However, it is clustered into the Juglandaceae family and showed a close relationship with the Platycaryoideae subfamily. Secondly, the folded 3-helices and 4-helices secondary structure of ITS2 were founded in the Juglandaceae family. Therefore, these ITS2 structures could be used as formal evidence to analyze Juglandaceae's phylogeny relationship. -
Population Structure, Genetic Diversity, and Gene Introgression of Two Closely Related Walnuts (Juglans Regia and J
Article Population Structure, Genetic Diversity, and Gene Introgression of Two Closely Related Walnuts (Juglans regia and J. sigillata) in Southwestern China Revealed by EST-SSR Markers Xiao-Ying Yuan, Yi-Wei Sun, Xu-Rong Bai, Meng Dang, Xiao-Jia Feng, Saman Zulfiqar and Peng Zhao * Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, College of Life Sciences, Northwest University, Xi’an 710069, China; [email protected] (X.-Y.Y.); [email protected] (Y.-W.S.); [email protected] (X.-R.B.); [email protected] (M.D.); [email protected] (X.-J.F.); [email protected] (S.Z.) * Correspondence: [email protected]; Tel./Fax: +86-29-88302411 Received: 20 September 2018; Accepted: 12 October 2018; Published: 16 October 2018 Abstract: The common walnut (Juglans regia L.) and iron walnut (J. sigillata Dode) are well-known economically important species cultivated for their edible nuts, high-quality wood, and medicinal properties and display a sympatric distribution in southwestern China. However, detailed research on the genetic diversity and introgression of these two closely related walnut species, especially in southwestern China, are lacking. In this study, we analyzed a total of 506 individuals from 28 populations of J. regia and J. sigillata using 25 EST-SSR markers to determine if their gene introgression was related to sympatric distribution. In addition, we compared the genetic diversity estimates between them. Our results indicated that all J. regia populations possess slightly higher genetic diversity than J. sigillata populations. The Geostatistical IDW technique (HO, PPL, NA and PrA) revealed that northern Yunnan and Guizhou provinces had high genetic diversity for J. -
The Chloroplast Genome of Carya Illinoinensis: Genome Structure, Adaptive Evolution, and Phylogenetic Analysis
Article The Chloroplast Genome of Carya illinoinensis: Genome Structure, Adaptive Evolution, and Phylogenetic Analysis Zhenghai Mo, Wenrui Lou, Yaqi Chen, Xiaodong Jia, Min Zhai, Zhongren Guo and Jiping Xuan * Institute of Botany, Jiangsu Province and Chinese Academy of Sciences, Nanjing 210014, China; [email protected] (Z.M.); [email protected] (W.L.); [email protected] (Y.C.); [email protected] (X.J.); [email protected] (M.Z.); [email protected] (Z.G.) * Correspondence: [email protected]; Tel.: +86-025-8434-7033 Received: 22 January 2020; Accepted: 8 February 2020; Published: 12 February 2020 Abstract: Research Highlights: For the first time, the complete chloroplast (cp) genome of Carya illinoinensis cv. ‘Pawnee’ was de novo assembled. Comprehensive analysis the cp genome of C. illinoinensis revealed potential cpDNA markers for intraspecies identification, genes involved in adaptation, and its phylogenetic position. Background and Objectives: C. illinoinensis is an economically important nut tree in the family Juglandaceae. Cp-derived markers are helpful for genetic research, but they still need to be developed in C. illinoinensis. Additionally, the adaptation and phylogenetic relationships of C. illinoinensis have not been revealed based on the complete cp genome. Materials and Methods: Chloroplast genomic DNA of C. illinoinensis cv. ‘Pawnee’ was extracted and subjected to Illumina sequencing. Results: The cp genome is 160,819 bp in size, exhibiting a typical quadripartite structure with a large single copy (LSC) of 90,022 bp, a small single copy (SSC) of 18,791 bp, and a pair of inverted repeats (IRA and IRB) regions of 26,003 bp each. The genome was predicted to encode 112 unique genes, including 79 protein-coding genes, 29 tRNAs, and four rRNAs, with 19 duplicates in the IR regions. -
Whole Genome Based Insights Into the Phylogeny and Evolution of the Juglandaceae
Whole Genome based Insights into the Phylogeny and Evolution of the Juglandaceae Huijuan Zhou Northwest A&F University: Northwest Agriculture and Forestry University Yiheng Hu Northwestern University Aziz Ebrahimi Purdue University Peiliang Liu Northwestern University Keith Woeste Purdue University Shuoxin Zhang Northwest A&F University: Northwest Agriculture and Forestry University Peng Zhao ( [email protected] ) Northwest University https://orcid.org/0000-0003-3033-6982 Research article Keywords: Diversication, Divergence time, Genome, Juglandaceae, Phylogenomics, Plastome Posted Date: May 24th, 2021 DOI: https://doi.org/10.21203/rs.3.rs-495294/v1 License: This work is licensed under a Creative Commons Attribution 4.0 International License. Read Full License Page 1/23 Abstract Background: The walnut family (Juglandaceae) contains commercially important woody trees commonly called walnut, wingnut, pecan and hickory. Phylogenetic relationships in the Juglandaceae are problematic, and their historical diversication has not been claried, in part because of low phylogenetic resolution and/or insucient marker variability. Results: We reconstructed the backbone phylogenetic relationships of Juglandaceae using organelle and nuclear genome data from 27 species. The divergence time of Juglandaceae was estimated to be 78.7 Mya. The major lineages diversied in warm and dry habitats during the mid-Paleocene and early Eocene. The plastid, mitochondrial, and nuclear phylogenetic analyses all revealed three subfamilies, i.e., Juglandoideae, Engelhardioideae, Rhoipteleoideae. Five genera of Juglandoideae were strongly supported. Juglandaceae were estimated to have originated during the late Cretaceous, while Juglandoideae were estimated to have originated during the Paleocene, with evidence for rapid diversication events during several glacial and geological periods. The phylogenetic analyses of organelle sequences and nuclear genome yielded highly supported incongruence positions for J. -
Juglans Sigillata) Gene Expression, Genetic Diversity, and Evolution
Tree Genetics & Genomes (2018) 14: 51 https://doi.org/10.1007/s11295-018-1263-z ORIGINAL ARTICLE Resources for studies of iron walnut (Juglans sigillata) gene expression, genetic diversity, and evolution Xiaojia Feng1 & Xiaoying Yuan1 & Yiwei Sun1 & Yiheng Hu1 & Saman Zulfiqar1 & Xianheng Ouyang1 & Meng Dang1 & Huijuan Zhou1 & Keith Woeste2 & Peng Zhao1 Received: 11 December 2017 /Revised: 6 June 2018 /Accepted: 11 June 2018 /Published online: 23 June 2018 # Springer-Verlag GmbH Germany, part of Springer Nature 2018 Abstract Iron walnut (Juglans sigillata Dode) is a temperate deciduous tree indigenous to China. It is distributed mainly in southwestern China, where it is valued for its wood and nuts. Transcriptomic and genomic data for the species are limited. Our goal was to assemble the whole chloroplast genome of J. sigillata, to use transcriptome information from RNA-Seq to understand the gene space in J. sigillata, and to develop polymorphic simple sequence repeats (SSRs, microsatellites) useful for understanding the species’ population genetics. The chloroplast genome consisted of a large single copy (LSC) of 89,872 bp, an inverted region (IR) of 52,072 bp, and a short single copy (SSC) of 18,406 bp. The chloroplast genome consisted of 137 annotated genes, with 71 unique coding regions and eight coding regions that were repeated in the inverted region. De novo assembly of the transcriptome yielded 83,112 unigenes with an average length of 686.9 bp. A search against the Gene Ontology (GO) database identified 19,718 unigenes. We evaluated transcriptome-derived microsatellite markers and chloroplast sequence polymorphisms in 48 J. sigillata individuals from three populations and 66 individuals from five other Chinese walnut (Juglans) species. -
Structural, Evolutionary and Phylogenomic Features of the Plastid Genome of Carya Illinoinensis Cv
Ann. For. Res. 63(1): 3-18, 2020 ANNALS OF FOREST RESEARCH DOI: 10.15287/afr.2019.1413 www.afrjournal.org Structural, evolutionary and phylogenomic features of the plastid genome of Carya illinoinensis cv. Imperial Jordana Caroline Nagel1,2, Lilian de Oliveira Machado3, Rafael Plá Matielo Lemos1, Cristiane Barbosa D’Oliveira Matielo1, Tales Poletto4, Igor Poletto1, Valdir Marcos Stefenon3,1 Nagel J.C., de Oliveira Machado, L., Lemos R.P.M., Barbosa D’Oliveira Matielo C., Poletto T., Poletto I., Stefenon V.M., 2020. Structural, evolutionary and phylog- enomic features of the plastid genome of Carya illinoinensis cv. Imperial. Ann. For. Res. 63(1): 3-18. Abstract. The economically most important nut tree species in the world belong to family Juglandaceae, tribe Jungladeae. Evolutive investigations concerning spe- cies from this tribe are important for understanding the molecular basis driving the evolution and systematics of these species. In this study, we release the complete plastid genome of C. illinoinensis cv. Imperial. Using an IonTorrent NGS platform we generated 8.5 x 108 bp of raw sequences, enabling the assemblage of the com- plete plastid genome of this species. The plastid genome is 160,818 bp long, having a quadripartite structure with an LSC of 90,041bp, an SSC of 18,791 bp and twoIRs of 25,993 bp. A total of 78 protein-coding, 37 tRNA-coding, and 8 rRNA-coding regions were predicted. Bias in synonymous codon usage was detected in cultivar Imperial and three tRNA-coding regions were identified as hotspots of nucleotide divergence, with high estimations of dN/dS ratio. -
Population Genetics, Phylogenomics and Hybrid Speciation Of
Molecular Phylogenetics and Evolution 126 (2018) 250–265 Contents lists available at ScienceDirect Molecular Phylogenetics and Evolution journal homepage: www.elsevier.com/locate/ympev Population genetics, phylogenomics and hybrid speciation of Juglans in T China determined from whole chloroplast genomes, transcriptomes, and genotyping-by-sequencing (GBS) ⁎ Peng Zhaoa, ,1, Hui-Juan Zhoua,1, Daniel Potterc, Yi-Heng Hua, Xiao-Jia Fenga, Meng Danga, ⁎ Li Fenga, Saman Zulfiqara, Wen-Zhe Liua, Gui-Fang Zhaoa, Keith Woesteb, a Key Laboratory of Resource Biology and Biotechnology in Western China, Ministry of Education, College of Life Sciences, Northwest University, Xi’an, Shaanxi 710069, China b USDA Forest Service Hardwood Tree Improvement and Regeneration Center (HTIRC), Department of Forestry and Natural Resources, Purdue University, 715 West State Street, West Lafayette, IN 47907, USA c Department of Plant Sciences, University of California, Davis, CA 95616, USA ARTICLE INFO ABSTRACT Keywords: Genomic data are a powerful tool for elucidating the processes involved in the evolution and divergence of Juglans species. The speciation and phylogenetic relationships among Chinese Juglans remain unclear. Here, we used Hybridization speciation results from phylogenomic and population genetic analyses, transcriptomics, Genotyping-By-Sequencing (GBS), Phylogeography and whole chloroplast genomes (Cp genome) data to infer processes of lineage formation among the five native Gene introgression Chinese species of the walnut genus (Juglans, Juglandaceae), a widespread, economically important group. We Population genetic found that the processes of isolation generated diversity during glaciations, but that the recent range expansion of J. regia, probably from multiple refugia, led to hybrid formation both within and between sections of the genus. -
The Evolution and Domestication Genetics of the Mango Genus
Florida International University FIU Digital Commons FIU Electronic Theses and Dissertations University Graduate School 4-27-2018 The volutE ion and Domestication Genetics of the Mango Genus, Mangifera (Anacardiaceae) Emily Warschefsky Florida International University, [email protected] DOI: 10.25148/etd.FIDC006564 Follow this and additional works at: https://digitalcommons.fiu.edu/etd Part of the Biodiversity Commons, Biology Commons, Botany Commons, Genetics and Genomics Commons, and the Plant Breeding and Genetics Commons Recommended Citation Warschefsky, Emily, "The vE olution and Domestication Genetics of the Mango Genus, Mangifera (Anacardiaceae)" (2018). FIU Electronic Theses and Dissertations. 3824. https://digitalcommons.fiu.edu/etd/3824 This work is brought to you for free and open access by the University Graduate School at FIU Digital Commons. It has been accepted for inclusion in FIU Electronic Theses and Dissertations by an authorized administrator of FIU Digital Commons. For more information, please contact [email protected]. FLORIDA INTERNATIONAL UNIVERSITY Miami, Florida EVOLUTION AND DOMESTICATION GENETICS OF THE MANGO GENUS, MANGIFERA (ANACARDIACEAE) A dissertation submitted in partial fulfillment of the requirements for the degree of DOCTOR OF PHILOSOPHY in BIOLOGY by Emily Warschefsky 2018 To: Dean Michael R. Heithaus College of Arts, Sciences and Education This dissertation, written by Emily Warschefsky, and entitled Evolution and Domestication Genetics of the Mango Genus, Mangifera (Anacardiaceae), having been approved -
Characterization of Autochthonous Walnut Germplasm in Friuli
Abstract Juglans regia is mostly distributed in the temperate and subtropical regions of the Northern Hemisphere. During the last ice age, the species survived only in refugial areas. In Europe it survived in the Italian and Balkan peninsulas. Friuli Venezia Giulia is the natural corridor where the two populations met during the re-colonization after the glaciation. In the present study 220 autochtonous accessions were sampled and georeferenced and a genetic analysis with 20 microsatellite loci taken from the literature was carried out. The local population shows a moderate genetic diversity and can be classified in two clusters. The first one shows a great mixture between genotypes coming from different areas, even particularly far away from each other. To this first cluster belongs the vast majority of the samples. The second cluster consist of three genotypes originated from an import of Walnuts from Russia at the beginning of the XX century. On the genotypes that during the investigation produced enough fruits carpometric analysis were performed. The best accessions were included in a ranking list compiled using a multivariate analysis considering all the traits valuable for breeding and selection, such as nut weight, kernel weight, shell thickness, kernel skin colour, ease of kernel extraction and fruit appearance. These best accessions will either be selected as they are for vegetative propagation or employed in breeding programs. For every genotype that produced fruits the oil content and its acidic spectrum were determined. Both turned out not to be influenced by the year of sampling. The studied wild walnut trees shown a significant linear relationship and a positive relationship between the minimum daily temperature and the oleic acid content.