Genetical Studies on Haploid Production in Some Ornamental Plants
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Characterisation of an Intron-Split Solanales Microrna
Characterisation of an intron-split Solanales microRNA Zahara Medina Calzada A thesis submitted for the degree of Doctor of Philosophy University of East Anglia School of Biological Sciences September 2017 This copy of the thesis has been supplied on condition that anyone who consults it is understood to recognise that its copyright rests with the author and that use of any information derived there from must be in accordance with current UK Copyright Law. In addition, any quotation or extract must include full attribution “Doing science is very romantic… when it works!” (the friend of a friend of mine) 2 Abstract MicroRNAs (miRNAs) are a distinct class of short endogenous RNAs with central roles in post-transcriptional regulation of gene expression that make them essential for the development and normal physiology of several groups of eukaryotes, including plants. In the last 15 years, hundreds of miRNA species have been identified in plants and great advances have been achieved in the understanding of plant miRNA biogenesis and mode of action. However, many miRNAs, generally those with less conventional features, still remain to be discovered. Likewise, further layers that regulate the pathway from miRNA biogenesis to function and turnover are starting to be revealed. In the present work we have studied the tomato miRNA “top14”, a miRNA with a non-canonical pri-miRNA structure in which an intron is in between miRNA and miRNA*. We have found that this miRNA is conserved within the economically important Solanaceae family and among other members of the Solanales order also agriculturally relevant, like in sweet potato, while its peculiar intron-split pri-miRNA structure is exclusively kept in the more closely related genera Solanum , Capsicum and Nicotiana . -
Genome Skimming for Phylogenomics
Genome skimming for phylogenomics Steven Andrew Dodsworth School of Biological and Chemical Sciences, Queen Mary University of London, Mile End Road, London E1 4NS, UK. Submitted in partial fulfilment of the requirements of the degree of Doctor of Philosophy November 2015 1 Statement of originality I, Steven Andrew Dodsworth, confirm that the research included within this thesis is my own work or that where it has been carried out in collaboration with, or supported by others, that this is duly acknowledged and my contribution indicated. Previously published material is also acknowledged and a full list of publications is given in the Appendix. Details of collaboration and publications are given at the start of each chapter, as appropriate. I attest that I have exercised reasonable care to ensure that the work is original, and does not to the best of my knowledge break any UK law, infringe any third party’s copyright or other Intellectual Property Right, or contain any confidential material. I accept that the College has the right to use plagiarism detection software to check the electronic version of the thesis. I confirm that this thesis has not been previously submitted for the award of a degree by this or any other university. The copyright of this thesis rests with the author and no quotation from it or information derived from it may be published without the prior written consent of the author. Signature: Date: 16th November 2015 2 Frontispiece: Nicotiana burbidgeae Symon at Dalhousie Springs, South Australia. 2014. Photo: S. Dodsworth. 3 Acknowledgements Firstly, I would like to thank my PhD supervisors, Professor Andrew Leitch and Professor Mark Chase. -
Fragrant Annuals Fragrant Annuals
TheThe AmericanAmerican GARDENERGARDENER® TheThe MagazineMagazine ofof thethe AAmericanmerican HorticulturalHorticultural SocietySociety JanuaryJanuary // FebruaryFebruary 20112011 New Plants for 2011 Unusual Trees with Garden Potential The AHS’s River Farm: A Center of Horticulture Fragrant Annuals Legacies assume many forms hether making estate plans, considering W year-end giving, honoring a loved one or planting a tree, the legacies of tomorrow are created today. Please remember the American Horticultural Society when making your estate and charitable giving plans. Together we can leave a legacy of a greener, healthier, more beautiful America. For more information on including the AHS in your estate planning and charitable giving, or to make a gift to honor or remember a loved one, please contact Courtney Capstack at (703) 768-5700 ext. 127. Making America a Nation of Gardeners, a Land of Gardens contents Volume 90, Number 1 . January / February 2011 FEATURES DEPARTMENTS 5 NOTES FROM RIVER FARM 6 MEMBERS’ FORUM 8 NEWS FROM THE AHS 2011 Seed Exchange catalog online for AHS members, new AHS Travel Study Program destinations, AHS forms partnership with Northeast garden symposium, registration open for 10th annual America in Bloom Contest, 2011 EPCOT International Flower & Garden Festival, Colonial Williamsburg Garden Symposium, TGOA-MGCA garden photography competition opens. 40 GARDEN SOLUTIONS Plant expert Scott Aker offers a holistic approach to solving common problems. 42 HOMEGROWN HARVEST page 28 Easy-to-grow parsley. 44 GARDENER’S NOTEBOOK Enlightened ways to NEW PLANTS FOR 2011 BY JANE BERGER 12 control powdery mildew, Edible, compact, upright, and colorful are the themes of this beating bugs with plant year’s new plant introductions. -
Comparative Analysis and Phylogenetic Investigation of Hong
www.nature.com/scientificreports OPEN Comparative analysis and phylogenetic investigation of Hong Kong Ilex chloroplast genomes Bobby Lim‑Ho Kong1,3, Hyun‑Seung Park2, Tai‑Wai David Lau1,3, Zhixiu Lin4, Tae‑Jin Yang2 & Pang‑Chui Shaw1,3* Ilex is a monogeneric plant group (containing approximately 600 species) in the Aquifoliaceae family and one of the most commonly used medicinal herbs. However, its taxonomy and phylogenetic relationships at the species level are debatable. Herein, we obtained the complete chloroplast genomes of all 19 Ilex types that are native to Hong Kong. The genomes are conserved in structure, gene content and arrangement. The chloroplast genomes range in size from 157,119 bp in Ilex gracilifora to 158,020 bp in Ilex kwangtungensis. All these genomes contain 125 genes, of which 88 are protein‑coding and 37 are tRNA genes. Four highly varied sequences (rps16-trnQ, rpl32-trnL, ndhD-psaC and ycf1) were found. The number of repeats in the Ilex genomes is mostly conserved, but the number of repeating motifs varies. The phylogenetic relationship among the 19 Ilex genomes, together with eight other available genomes in other studies, was investigated. Most of the species could be correctly assigned to the section or even series level, consistent with previous taxonomy, except Ilex rotunda var. microcarpa, Ilex asprella var. tapuensis and Ilex chapaensis. These species were reclassifed; I. rotunda was placed in the section Micrococca, while the other two were grouped with the section Pseudoaquifolium. These studies provide a better understanding of Ilex phylogeny and refne its classifcation. Ilex, a monogeneric plant group in the family Aquifoliaceae, is a widespread genus. -
Solanaceae): Insights Into Molecular Evolution, Positive 3 Selection and the Origin of the Maternal Genome of Aztec Tobacco (Nicotiana Rustica
bioRxiv preprint doi: https://doi.org/10.1101/2020.01.13.905158; this version posted January 14, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC 4.0 International license. 1 Short Title: Comparison of Nicotiana plastid genomes 2 Plastid genomics of Nicotiana (Solanaceae): insights into molecular evolution, positive 3 selection and the origin of the maternal genome of Aztec tobacco (Nicotiana rustica) 4 Furrukh Mehmood1, Abdullah1, Zartasha Ubaid1, Iram Shahzadi1, Ibrar Ahmed2, Mohammad 5 Tahir Waheed1, Péter Poczai*3, Bushra Mirza*1 6 1Department of Biochemistry, Quaid-i-Azam University, Islamabad, Pakistan 7 2Alpha Genomics Private Limited, Islamabad, Pakistan 8 3Finnish Museum of Natural History (Botany Unit), University of Helsinki, Helsinki, Finland 9 *Corresponding authors: Bushra Mirza ([email protected]) 10 Péter Poczai ([email protected]) 11 12 13 14 15 16 17 18 19 20 21 22 23 24 25 26 1 bioRxiv preprint doi: https://doi.org/10.1101/2020.01.13.905158; this version posted January 14, 2020. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC 4.0 International license. 27 Abstract 28 The genus Nicotiana of the family Solanaceae, commonly referred to as tobacco plants, are a 29 group cultivated as garden ornamentals. Besides their use in the worldwide production of 30 tobacco leaves, they are also used as evolutionary model systems due to their complex 31 development history, which is tangled by polyploidy and hybridization. -
Transgressive Phenotypes and Generalist Pollination in the Floral Evolution of Nicotiana Polyploids
Title Transgressive phenotypes and generalist pollination in the floral evolution of Nicotiana polyploids Authors McCarthy, EW; Chase, MW; Knapp, S; Litt, A; Leitch, AR; Le Comber, SC Description This is the author's proof Date Submitted 2017-02-23 ARTICLES PUBLISHED: XX XX 2016 | ARTICLE NUMBER: 16119 | DOI: 10.1038/NPLANTS.2016.119 Transgressive phenotypes and generalist pollination in the floral evolution of Q1 Nicotiana polyploids Elizabeth W. McCarthy1,2,3†,MarkW.Chase2, Sandra Knapp3,AmyLitt4, Andrew R. Leitch1 and Steven C. Le Comber1* Polyploidy is an important driving force in angiosperm evolution, and much research has focused on genetic, epigenetic and transcriptomic responses to allopolyploidy. Nicotiana is an excellent system in which to study allopolyploidy because half of the species are allotetraploids of different ages, allowing us to examine the trajectory of floral evolution over time. Here, we study the effects of allopolyploidy on floral morphology in Nicotiana, using corolla tube measurements and geometric morphometrics to quantify petal shape. We show that polyploid morphological divergence from the intermediate phenotype expected (based on progenitor morphology) increases with time for floral limb shape and tube length, and that most polyploids are distinct or transgressive in at least one trait. In addition, we show that polyploids tend to evolve shorter and wider corolla tubes, suggesting that allopolyploidy could provide an escape from specialist pollination via reversion to more generalist pollination strategies. 1 olyploidy, or whole genome duplication (WGD), is an impor- transgressively larger14. In addition, autopolyploidy alone can 33 2 Ptant driving force in the evolution of angiosperms. Ancient yield floral changes even without the diversity generated by hybrid- 34 3 polyploid events are shared by all seed plants, all angiosperms ization. -
A Study of the Plant Ecology of the Coast Region of Kenya Colony
^•ooooo0Oooooeo0Oooooooeocooo«oeooooooo«oeGso0O«oeoeoeO0oeooGoo0Ooo0OO€ A STUDY OF THE PLANT ECOLOGY OF THE * * * * COAST REGION ¥ ¥ * OF KENYA COLONY M » BRITISH EAST AFRICA * * by JAMES C. MOOMAW * Fulbiißht Research Scholar KENYA DEPARTMENT OF AGRICULTURE and EAST AFRICAN AGRICULTURE AND FORESTRY RESEARCH ORGANIZATION co-operating with the UNITED STATES EDUCATIONAL COMMISSION in the United Kingdom 7K I960 BRBfFED BY THE GOVERNMENT PRINTER, NAIROBI * Price: Sh. 10 ¥ ISRIC LIBRARY KE - 1960.04 OOOOOOOeOtOtOOGOOOOtOaOtOOOOGtOOOOOtOOOBOOOOOOOK Wageningen The Netherlands Scanned from original by ISRIC - World Soil Information, as ICSU World Data Centre for Soils. The purpose is to make a safe depository for endangered documents and to make the accrued ku=. information available for consultation, following Fair Use jdo.oH Guidelines. Every effort is taken to respect Copyright of the Wageningen, The Netherlands materials within the archives where the identification of the Copyright holder is clear and, where feasible, to contact the originators. For questions please contact soil.isricgiwur.nl indicating the item reference number concerned. A STUDY OF THE PLANT ECOLOGY OF THE COAST REGION OF KENYA COLONY BRITISH EAST AFRICA by JAMES C. MOOMAW Fulbright Research Scholar 15 f.o& The following is the first approximation to what will be a more detailed study when more time is avail able. Your comments, corrections, criticisms, and additions are solicited. JAMES C. MOOMAW, Department of Agronomy and Soil Science, University of Hawaii, Honolulu, -
(PVY) and Tomato Spotted Wilt Virus (TSWV) Compared to Other Sources of Resistance
agronomy Article Resistance Response of the Recently Discovered Species Nicotiana mutabilis to Potato virus Y (PVY) and Tomato spotted wilt virus (TSWV) Compared to Other Sources of Resistance Anna Depta * , Teresa Doroszewska and Anna Czubacka Institute of Soil Science and Plant Cultivation—State Research Institute, Czartoryskich 8 Str., 24-100 Puławy, Poland; [email protected] (T.D.); [email protected] (A.C.) * Correspondence: [email protected] Abstract: Nicotiana mutabilis is a recently discovered species within the genus Nicotiana. The aim of the present study was to evaluate its resistance to Potato virus Y (PVY) and Tomato spotted wilt virus (TSWV). Molecular analysis was performed to detect the Va gene determining susceptibility to PVY and the SCAR marker associated with resistance to TSWV. Resistance tests were carried out under greenhouse conditions through artificial inoculation with one TSWV and two PVY isolates. In order to confirm the presence of the viruses in plants, DAS-ELISA tests were performed using antibodies against PVY and TSWV. The results indicated the absence of the PVY susceptibility gene and the presence of the TSWV resistance gene in the genome of N. mutabilis. This species was considered tolerant to the two PVY isolates tested because, despite the positive DAS-ELISA results, the infected plants showed vein clearing and chlorotic spots but no vein necrosis. As a result of TSWV inoculation, N. mutabilis showed a hypersensitive response; however, after four months, 30% of the inoculated Citation: Depta, A.; Doroszewska, T.; Nicotiana Czubacka, A. Resistance Response of plants showed systemic infection. This species extends the genetic variation in the genus the Recently Discovered Species and, because of its tolerance to PVY and partial resistance to TSWV, it may be a potential source of Nicotiana mutabilis to Potato virus Y resistance to these viruses. -
Plant Diseases Regulations 1989
Western Australia Plant Diseases Regulations 1989 STATUS OF THIS DOCUMENT This document is from an electronic database of legislation maintained by the Parliamentary Counsel’s Office of Western Australia. DISCLAIMER No warranty is given as to the accuracy or completeness of this document. The State of Western Australia and its agents and employees disclaim liability, whether in negligence or otherwise, for any loss or damage resulting from reliance on the accuracy or completeness of this document. REPRINT AND CONSOLIDATION NUMBERING The reprint number (in the footer of each page of the document) shows how many times the Act has been reprinted. For example, numbering a reprint as “Reprint 3” would mean that the reprint was the 3rd reprint since the Act was passed. A consolidation described as “Consolidation 3a” would be the result of updating Reprint 3 for the first time to reflect the amendments since the date as at which Reprint 3 was prepared. Reprint and consolidation numbering was implemented as from 1 January 2003. COPYRIGHT Copyright in this document is reserved to the Crown in right of the State of Western Australia. Reproduction except in accordance with copyright law is prohibited. THE TEXT OF THE LEGISLATION FOLLOWS Western Australia Plant Diseases Regulations 1989 CONTENTS Part 1 — Preliminary 1. Citation 1 2. Commencement 1 3. Interpretation 1 Part 2 — Entry requirements 3A. Quality assurance system 3 3B. Bringing plants into the State 3 4. Potential carriers — conditions for entry 3 4A. Potential carriers — entry for experimental purposes 4 4B. Potential carriers — entry for processing or export 4 5. Entry of propagating material 5 6. -
1Mr4 Lichtarge Lab 2006
Pages 1–4 1mr4 Evolutionary trace report by report maker May 12, 2010 4.3.5 LaTex 4 4.3.6 Muscle 4 4.3.7 Pymol 4 4.4 Note about ET Viewer 4 4.5 Citing this work 4 4.6 About report maker 4 4.7 Attachments 4 1 INTRODUCTION From the original Protein Data Bank entry (PDB id 1mr4): Title: Solution structure of nad1 from nicotiana alata Compound: Mol id: 1; molecule: nicotiana alata plant defensin 1 (nad1); chain: a; fragment: residues 1-47; synonym: flower-specific gamma-thionin Organism, scientific name: Nicotiana Tabacum; 1mr4 contains a single unique chain 1mr4A (47 residues long). This is an NMR-determined structure – in this report the first model in the file was used. 2 CHAIN 1MR4A CONTENTS 2.1 Q8GTM0 overview From SwissProt, id Q8GTM0, 100% identical to 1mr4A: 1 Introduction 1 Description: Flower-specific defensin precursor (NaD1). 2 Chain 1mr4A 1 Organism, scientific name: Nicotiana alata (Winged tobacco) (Per- 2.1 Q8GTM0 overview 1 sian tobacco). 2.2 Multiple sequence alignment for 1mr4A 1 Taxonomy: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; 2.3 Residue ranking in 1mr4A 1 Tracheophyta; Spermatophyta; Magnoliophyta; eudicotyledons; core 2.4 Top ranking residues in 1mr4A and their position on eudicotyledons; asterids; lamiids; Solanales; Solanaceae; Nicotiana. the structure 2 Function: Plant defense peptide with antifungal activity against 2.4.1 Clustering of residues at 26% coverage. 2 F.oxysporum and B.cinerea. Retards the growth of the Lepidopteran insect pests H.armigera and H.punctigera. 3 Notes on using trace results 2 Biophysicochemical properties: 3.1 Coverage 2 pH dependence: Stable under extremes of pH; Temperature depen- 3.2 Known substitutions 2 dence: Stable under extremes of temperature; 3.3 Surface 2 Subcellular location: Vacuolar. -
An Assessment of Floral Diversity in the Mangrove Forest of Karaikal
International Journal of Research in Social Sciences Vol. 9 Issue 1, January 2019, ISSN: 2249-2496 Impact Factor: 7.081 Journal Homepage: http://www.ijmra.us, Email: [email protected] Double-Blind Peer Reviewed Refereed Open Access International Journal - Included in the International Serial Directories Indexed & Listed at: Ulrich's Periodicals Directory ©, U.S.A., Open J-Gage as well as in Cabell’s Directories of Publishing Opportunities, U.S.A An Assessment of Floral Diversity in the Mangrove Forest of Karaikal, Karaikal District, Puducherry Union territory Duraimurugan, V.* Jeevanandham, P.** Abstract The tropical coastal zone of the world is covered by a dynamic system in a state of continual adjustment as a result of natural process and human activities. The mangrove ecosystem is a unique association of plants, animals and micro-organisms acclimatized to life in the fluctuating environment of the tropical and subtropical and intertidal zone covering more than 10 million ha worldwide. The present study documents the directly observed diversity of true mangroves and their associates, in the mangroves of Karaikal. The present study recorded a sum of 136 plant species. Among the plants 8 species were true mangroves and 128 species were mangrove associates. The family Rhizophoraceae is the dominant group represent three species followed by Avicenniaceae with two species. The associated mangrove flora recorded in the present study falls to 128 genera belongs to 42 families from 20 orders. As per IUCN current status, most of the mangrove species in decreased status. The base line information is very much helpful for the conservation and feature references. -
The Sequenced Angiosperm Genomes and Genome Databases
REVIEW published: 13 April 2018 doi: 10.3389/fpls.2018.00418 The Sequenced Angiosperm Genomes and Genome Databases Fei Chen 1†, Wei Dong 1†, Jiawei Zhang 1, Xinyue Guo 1, Junhao Chen 2, Zhengjia Wang 2, Zhenguo Lin 3, Haibao Tang 1 and Liangsheng Zhang 1* 1 State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops, College of Life Sciences, Fujian Provincial Key Laboratory of Haixia Applied Plant Systems Biology, Ministry of Education Key Laboratory of Genetics, Breeding and Multiple Utilization of Corps, Fujian Agriculture and Forestry University, Fuzhou, China, 2 State Key Laboratory of Subtropical Silviculture, School of Forestry and Biotechnology, Zhejiang Agriculture and Forestry University, Hangzhou, China, 3 Department of Biology, Saint Louis University, St. Louis, MO, United States Angiosperms, the flowering plants, provide the essential resources for human life, such as food, energy, oxygen, and materials. They also promoted the evolution of human, animals, and the planet earth. Despite the numerous advances in genome reports or sequencing technologies, no review covers all the released angiosperm genomes and the genome databases for data sharing. Based on the rapid advances and innovations in the database reconstruction in the last few years, here we provide a comprehensive Edited by: review for three major types of angiosperm genome databases, including databases Santosh Kumar Upadhyay, Panjab University, India for a single species, for a specific angiosperm clade, and for multiple angiosperm Reviewed by: species. The scope, tools, and data of each type of databases and their features Sumit Kumar Bag, are concisely discussed. The genome databases for a single species or a clade of National Botanical Research Institute species are especially popular for specific group of researchers, while a timely-updated (CSIR), India Xiyin Wang, comprehensive database is more powerful for address of major scientific mysteries at North China University of Science and the genome scale.