Environmental Science and Technology Department Annual Report 1991
Total Page:16
File Type:pdf, Size:1020Kb
Load more
Recommended publications
-
Who's Related to Whom?
149 Who’s related to whom? Recent results from molecular systematic studies Elizabeth A Kellogg Similarities among model systems can lead to generalizations systematist’s question-why are there so many different about plants, but understanding the differences requires kinds of organisms? Studies of the evolution of develop- systematic data. Molecular phylogenetic analyses produce ment demand that the investigator go beyond the model results similar to traditional classifications in the grasses system and learn the pattern of variation in its relatives (Poaceae), and relationships among the cereal crops [3*]. This requires a reasonable assessment of the relatives’ are quite clear. Chloroplast-based phylogenies for the identity. Solanaceae show that tomato is best considered as a species of Solarium, closely related to potatoes. Traditional Knowledge of plant relationships has increased rapidly classifications in the Brassicaceae are misleading with in the past decade, reflecting partly the development regard to true phylogenetic relationships and data are only of molecular systematics. It has been known for some now beginning to clarify the situation. Molecular data are time that plant classifications do not reflect phylogeny also being used to revise our view of relationships among accurately, even though both phylogeny and classification flowering plant families. Phylogenetic data are critical for are hierarchical. The hierarchy of classification was interpreting hypotheses of the evolution of development. imposed in the late 18th century, well before ideas of descent with modification (evolution) were prevalent [4]. These pre-evolutionary groups were then re-interpreted in Address an evolutionary context, and were assumed to be products Harvard University Herbaria, 22 Divinity Avenue Cambridge, MA of evolution, rather than man-made artefacts. -
Evolutionary Consequences of Dioecy in Angiosperms: the Effects of Breeding System on Speciation and Extinction Rates
EVOLUTIONARY CONSEQUENCES OF DIOECY IN ANGIOSPERMS: THE EFFECTS OF BREEDING SYSTEM ON SPECIATION AND EXTINCTION RATES by JANA C. HEILBUTH B.Sc, Simon Fraser University, 1996 A THESIS SUBMITTED IN PARTIAL FULFILLMENT OF THE REQUIREMENTS FOR THE DEGREE OF DOCTOR OF PHILOSOPHY in THE FACULTY OF GRADUATE STUDIES (Department of Zoology) We accept this thesis as conforming to the required standard THE UNIVERSITY OF BRITISH COLUMBIA July 2001 © Jana Heilbuth, 2001 Wednesday, April 25, 2001 UBC Special Collections - Thesis Authorisation Form Page: 1 In presenting this thesis in partial fulfilment of the requirements for an advanced degree at the University of British Columbia, I agree that the Library shall make it freely available for reference and study. I further agree that permission for extensive copying of this thesis for scholarly purposes may be granted by the head of my department or by his or her representatives. It is understood that copying or publication of this thesis for financial gain shall not be allowed without my written permission. The University of British Columbia Vancouver, Canada http://www.library.ubc.ca/spcoll/thesauth.html ABSTRACT Dioecy, the breeding system with male and female function on separate individuals, may affect the ability of a lineage to avoid extinction or speciate. Dioecy is a rare breeding system among the angiosperms (approximately 6% of all flowering plants) while hermaphroditism (having male and female function present within each flower) is predominant. Dioecious angiosperms may be rare because the transitions to dioecy have been recent or because dioecious angiosperms experience decreased diversification rates (speciation minus extinction) compared to plants with other breeding systems. -
Large Trees, Supertrees and the Grass Phylogeny
LARGE TREES, SUPERTREES AND THE GRASS PHYLOGENY Thesis submitted to the University of Dublin, Trinity College for the Degree of Doctor of Philosophy (Ph.D.) by Nicolas Salamin Department of Botany University of Dublin, Trinity College 2002 Research conducted under the supervision of Dr. Trevor R. Hodkinson Department of Botany, University of Dublin, Trinity College Dr. Vincent Savolainen Jodrell Laboratory, Molecular Systematics Section, Royal Botanic Gardens, Kew, London DECLARATION I thereby certify that this thesis has not been submitted as an exercise for a degree at any other University. This thesis contains research based on my own work, except where otherwise stated. I grant full permission to the Library of Trinity College to lend or copy this thesis upon request. SIGNED: ACKNOWLEDGMENTS I wish to thank Trevor Hodkinson and Vincent Savolainen for all the encouragement they gave me during the last three years. They provided very useful advice on scientific papers, presentation lectures and all aspects of the supervision of this thesis. It has been a great experience to work in Ireland, and I am especially grateful to Trevor for the warm welcome and all the help he gave me, at work or outside work, since the beginning of this Ph.D. in the Botany Department. I will always remember his patience and kindness to me at this time. I am also grateful to Vincent for his help and warm welcome during the different periods of time I stayed in London, but especially for all he did for me since my B.Sc. at the University of Lausanne. I wish also to thank Prof. -
Phylogeny of Elymus Ststhh Allotetraploids Based on Three Nuclear Genes
Reticulate Evolutionary History of a Complex Group of Grasses: Phylogeny of Elymus StStHH Allotetraploids Based on Three Nuclear Genes Roberta J. Mason-Gamer*, Melissa M. Burns¤a, Marianna Naum¤b Department of Biological Sciences, The University of Illinois at Chicago, Chicago, Illinois, United States of America Abstract Background: Elymus (Poaceae) is a large genus of polyploid species in the wheat tribe Triticeae. It is polyphyletic, exhibiting many distinct allopolyploid genome combinations, and its history might be further complicated by introgression and lineage sorting. We focus on a subset of Elymus species with a tetraploid genome complement derived from Pseudoroegneria (genome St) and Hordeum (H). We confirm the species’ allopolyploidy, identify possible genome donors, and pinpoint instances of apparent introgression or incomplete lineage sorting. Methodology/Principal Findings: We sequenced portions of three unlinked nuclear genes—phosphoenolpyruvate carboxylase, b-amylase, and granule-bound starch synthase I—from 27 individuals, representing 14 Eurasian and North American StStHH Elymus species. Elymus sequences were combined with existing data from monogenomic representatives of the tribe, and gene trees were estimated separately for each data set using maximum likelihood. Trees were examined for evidence of allopolyploidy and additional reticulate patterns. All trees confirm the StStHH genome configuration of the Elymus species. They suggest that the StStHH group originated in North America, and do not support separate North American and European origins. Our results point to North American Pseudoroegneria and Hordeum species as potential genome donors to Elymus. Diploid P. spicata is a prospective St-genome donor, though conflict among trees involving P. spicata and the Eurasian P. -
Historical Review and Prospect of Taxonomy of Tribe Triticeae Dumortier (Poaceae)
Breeding Science 59: 513–518 (2009) Review Historical review and prospect of taxonomy of tribe Triticeae Dumortier (Poaceae) Chi Yen* and Jun Liang Yang Triticeae Research Institute, Sichuan Agricultural University, Chengdu 611130, Sichuan, The People’s Republic of China The tribe Triticeae is a taxon in the Poaceae that includes several important cereal crops and forage grasses. All its species, including those that are not used for cereals or forage, are potential sources of genes for crop and forage improvement so they all have high economic value. Taxonomic treatments, including those of the Triticeae, are the basis for identification. They are often designed to reflect phylogenetic relationships and provide a guide for germplasm utilization. Traditional taxonomic treatments of the Triticeae were based on comparative morphology and geography. Morphological characters are phenotypes of an organism, resulting from interactions between or among dominant genes and environmental factors. Morphology cannot reflect recessive inheritance. Similar environmental conditions may result in morphological convergence in distantly related taxa and different environmental conditions in morphological divergence of closely related taxa. Con- sequently, traditional morphological taxonomy may result in misclassification. Cytogenetic and/or molecular genomic analysis may reveal such mistakes. On the basis of recent genomic investigations of the Triticeae, we have recognized 30 genera in this tribe. The taxonomic changes and genomic constitution of these genera are presented in this paper. Key Words: Triticeae, genera, genomic constitution, phylogenetic relationships. Introduction Linnaeus (1753) later named them Aegilops ovata and Ae. triuncialis, respectively. These names are, however, al- The tribe Triticeae is a taxon in the Poaceae that includes ways attributed to Linnaeus because, ever since acceptance several important cereal crops and forage grasses. -
A Survey of the Elymus L. Sl Species Complex
A survey of the Elymus L. s. l. species complex (Triticeae, Poaceae) in Italy: taxa and nothotaxa, new combinations and identification key Enrico Banfi1 1 Sezione di Botanica, Museo di Storia Naturale di Milano, Corso Venezia 55, 20121 Milano, Italia. E-mail: [email protected] Abstract - Elymus s. l. is a critical topic on which only a little light has begun to be made regarding phylogenetic reticulation, genome evolution and consistency of genera. In Italy, Elymus s. l. officially includes ten species (nine native, one alien) and some well-established and widespread hybrids generally not treated as little or nothing is known of them. In this paper fourteen species (with two subspecies) and six hybrids are taken into account and the following seven new combinations are proposed: Thinopyrum acutum (DC.) Banfi, Thinopyrum corsicum (Hack.) Banfi, Thinopyrum intermedium (Host) Barkworth & Dewey subsp. pouzolzii (Godr.) Banfi, Thinopyrum obtusiflorum (DC.) Banfi, Thinopyrum duvalii (Loret) Banfi, Thinoelymus drucei (Stace) Banfi, Thinoelymus mucronatus (Opiz) Banfi. Some observations are provided for each subject and a key to species, subspecies and hybrids is made available. Key words: combinations, Elymus, Elytrigia, hybrids, Italy, key, nomenclature, taxonomy, Thinopyrum, Thinoelymus. Riassunto - I recenti progressi della filogenesi in campo genomiale hanno consentito di riproporre la delimitazione di alcuni generi più o meno sommersi in Elymus s. l. In Italia ad Elymus s. l. sono ascritte ufficialmente dieci specie (nove autoctone e una alloctona) oltre ad alcuni ibridi stabilizzati e ben diffusi, ma poco considerati in quanto mal conosciuti. In questa sede sono prese in considerazione quattordici specie (con due sottospecie) e sei ibridi, inoltre vengono proposte le seguenti sette nuove combinazioni: Thinopyrum acutum (DC.) Banfi, Thinopyrum corsicum (Hack.) Banfi, Thinopyrum intermedium (Host) Barkworth & Dewey subsp. -
Evolutionary Dynamics of the Pgk1 Gene in the Polyploid Genus Kengyilia (Triticeae: Poaceae) and Its Diploid Relatives
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by PubMed Central Evolutionary Dynamics of the Pgk1 Gene in the Polyploid Genus Kengyilia (Triticeae: Poaceae) and Its Diploid Relatives Xing Fan1,2., Li-Na Sha1., Jian Zeng3, Hou-Yang Kang1, Hai-Qin Zhang1, Xiao-Li Wang4, Li Zhang4, Rui- Wu Yang4, Chun-Bang Ding4, You-Liang Zheng1,2, Yong-Hong Zhou1,2* 1 Triticeae Research Institute, Sichuan Agricultural University, Sichuan, People’s Republic of China, 2 Key Laboratory of Crop Genetic Resources and Improvement, Ministry of Education, Sichuan Agricultural University, Sichuan, People’s Republic of China, 3 College of Resources and Environment, Sichuan Agricultural University, Sichuan, People’s Republic of China, 4 Department of Biology and Science, Sichuan Agricultural University, Sichuan, People’s Republic of China Abstract The level and pattern of nucleotide variation in duplicate gene provide important information on the evolutionary history of polyploids and divergent process between homoeologous loci within lineages. Kengyilia is a group of allohexaploid species with the StYP genomic constitutions in the wheat tribe. To investigate the evolutionary dynamics of the Pgk1 gene in Kengyilia and its diploid relatives, three copies of Pgk1 homoeologues were isolated from all sampled hexaploid Kengyilia species and analyzed with the Pgk1 sequences from 47 diploid taxa representing 18 basic genomes in Triticeae. Sequence diversity patterns and genealogical analysis suggested that (1) Kengyilia species -
Morphological Identification of Genomic Genera in the Triticeae
Breeding Science 59: 561–570 (2009) Morphological identification of genomic genera in the Triticeae Mary E. Barkworth*1), D. Richard Cutler2), Jeffrey S. Rollo1), Surrey W.L. Jacobs3) and Abdur Rashid4) 1) Intermountain Herbarium, Department of Biology, Utah State University, Logan, Utah 84322-5305, USA 2) Department of Mathematics and Statistics, Utah State University, Logan, Utah 84322-3900, USA 3) National Herbarium of New South Wales, Mrs Macquarries Road, Sydney, N.S.W. 2000, Australia 4) University of Peshawar Botanic Garden, University of Peshawar, Peshawar, Northwest Frontier Province, Pakistan Our goal was to determine whether the genomic groups of perennial species Triticeae having solitary spikelets could be identified morphologically and, if so, to construct identification keys that could be used for this purpose. If so, it would strengthen the argument for recognizing such groups as genera. We conducted Dis- criminant and Random Forest® analyses of 61 characters scored on 218 herbarium specimens representing 13 genomic groups. In addition, we closely examined some additional characters that came to our attention, evaluating our findings on specimens not scored for the two kinds of analysis. Random Forest® analysis was almost always more successful in distinguishing the genomic groups, whether separating all 13 groups or a subset of the 13. The results suggest that it is usually possible to identify the genomic group to which a spec- imen of perennial Triticeae with solitary spikelets belongs on the basis of its morphology but that doing so will require examination of characters that have not been considered particularly important in the past. Among these are the length of the middle inflorescence internodes, the width of the palea tip, and the morphology of the glumes. -
Origin and Evolutionary Dynamic of Elymus Ciliaris, E. Pendulinus and E. Longearistatus (Triticeae: Poaceae) by Qianni Hu a Thes
Origin and Evolutionary Dynamic of Elymus ciliaris, E. pendulinus and E. longearistatus (Triticeae: Poaceae) by Qianni Hu A Thesis Submitted to Saint Mary's University, Halifax, Nova Scotia, in Partial Fulfillment of the Requirements for the Degree of Master of Science in Applied Science August 20, 2013, Halifax, Nova Scotia Copyright Qianni Hu, 2013 Approved: Dr. Genlou Sun Supervisor Department of Biology Approved: Dr. Sean Myles External Examiner Department of Plant & Animal Sciences, Agricultural Campus Dalhousie University Approved: Dr. Ronald Russell Supervisory Committee Member Department of Biology Approved: Dr. Pierre Jutras Supervisory Committee Member Department of Geology Approved: Dr. Hai Wang Graduate Studies Representative Date: August 20, 2013 I Origin and Evolutionary Dynamic of Elymus ciliaris, E. pendulinus and E. longearistatus (Triticeae: Poaceae) by Qianni Hu Abstract Evidence accumulated over the last decade has shown that allopolyploid genomes may undergo complex reticulate evolution. Elymus, a genus with rampant interspecific hybridization, is an ideal model for examining the impact of gene introgression and polyploidization on species diversification. Although five basic genomes (St, H, Y, P and W) have so far been identified in species of the genus Elymus, the origin of the Y genome in species with a StY genome is still unknown and under debate. Previous studies suggested that the St and Y genomes may share a common progenitor genome. To test this hypothesis and explore genome evolutionary dynamic, we analyzed three tetraploid StY Elymus species, E. ciliaris, E. pendulinus and E. longearistatus, using molecular markers. The results rejected the suggestion of the same origin of the St and Y genomes. -
Phylogenetic Reconstruction and Diversification of the Triticeae
Biochemical Systematics and Ecology 50 (2013) 346–360 Contents lists available at SciVerse ScienceDirect Biochemical Systematics and Ecology journal homepage: www.elsevier.com/locate/biochemsyseco Phylogenetic reconstruction and diversification of the Triticeae (Poaceae) based on single-copy nuclear Acc1 and Pgk1 gene data Xing Fan a,b, Li-Na Sha a, Shuang-Bin Yu a, Dan-Dan Wu a, Xiao-Hong Chen a, Xiao-Feng Zhuo a, Hai-Qin Zhang a, Hou-Yang Kang a, Yi Wang a, You-Liang Zheng a,b, Yong-Hong Zhou a,b,* a Triticeae Research Institute, Sichuan Agricultural University, Wenjiang 611130, Sichuan, China b Key Laboratory of Crop Genetic Resources and Improvement, Ministry of Education, Sichuan Agricultural University, Yaan 625014, Sichuan, China article info abstract Article history: Two single-copy nuclear gene (Acc1 and Pgk1) sequences were used to estimate the phy- Received 23 March 2013 logeny and diversification patterns of the Triticeae. Phylogenetic analyses and diversification Accepted 18 May 2013 patterns suggested that (1) a major radiation occurring in the Triticeae about 6.1–9.2 MYA Available online might have been triggered by the late Miocene climate oscillations; (2) the Triticeae lineages from Mediterranean and Arctic-temperate regions were evolutionarily distinct; (3) the Keywords: relationship between Thinopyrum bessarabicum and Triticum/Aegilops is more closely than Triticeae that between Lophopyrum elongatum and Triticum/Aegilops;(4)Pseudoroegneria is closely Phylogeny Diversification related to Australopyrum and Lophopyrum;(5)Australopyrum might originate from coloni- Monogenomic genera zation via South-east Asia during the late Miocene; (6) Habitats, mating systems, and climate Climate oscillations oscillations may associated with the diversification rate shifts leading to the majority of Mediterranean lineage. -
Molecular Phylogeny Among Triticum-Aegilops Species and of the Tribe Triticeae
Breeding Science 59: 499–504 (2009) Review Molecular phylogeny among Triticum-Aegilops species and of the tribe Triticeae Taihachi Kawahara* Plant Germ-plasm Institute, Graduate School of Agriculture, Kyoto University, Muko 617-0001, Japan The tribe Triticeae includes some of the world’s most important cereal crops, such as wheat, barley, and rye. It also includes important, mostly perennial, fodder grasses such as Agropyron, Elymus, Leymus, Psathyrostachys, and others. Many wild annual grasses of the tribe Triticeae belong to a highly valuable gene pool for cereal breeding—Triticum, Aegilops, Secale, Hordeum, Dasypyrum, etc., and some are interesting ephemeral plants of deserts, including Eremopyrum, Crithopsis, and Heteranthelium. Another group is interesting taxonomically, because they are on the border or just beyond the limit of the tribe, such as Brachypodium and Henrardia. Triticeae is a taxonomically controversial group at both the species and ge- neric level. One extreme is considering Triticum to be the only genus of Triticeae, and an opposite extreme is accepting of a huge amount of often monotypic genera. Therefore, it seemed appropriate to review here several issues of the taxonomy and phylogeny of the tribe Triticeae. Key Words: Molecular phylogeny, Triticum-Aegilops complex, Triticeae, monophyly. Introduction only plants in several habitats and accompany humans as weeds. They all possess a tremendous richness of genes and This special issue of Breeding Science, Japanese Society of gene complexes useful in agricultural research and breeding. Breeding, constitutes the proceeding of the 6th International The tribe Triticeae is a taxonomically controversial group at Triticeae Symposium, which was held in Kyoto, Japan, from both the species and generic level. -
The Domestication Syndrome Genes Responsible for the Major Changes
View metadata, citation and similar papers at core.ac.uk brought to you by CORE provided by PubMed Central The Domestication Syndrome Genes Responsible for the Major Special Issue Changes in Plant Form in the Triticeae Crops Shun Sakuma1,2, Bjo¨rn Salomon3 and Takao Komatsuda1,* 1National Institute of Agrobiological Sciences (NIAS), Plant Genome Research Unit, 2-1-2 Kan-non-dai, Tsukuba, Ibaraki, 305-8602 Japan 2Graduate School of Horticulture, Chiba University, 648 Matsudo, Matsudo, Chiba, 271-8510 Japan 3Swedish University of Agricultural Sciences, Department of Plant Breeding and Biotechnology, PO Box 101, SE-23053 Alnarp, Sweden *Corresponding author: E-mail, [email protected]; Fax, +81-29-838-7408 – Review (Received December 27, 2010; Accepted February 28, 2011) The process of crop domestication began 10,000 years ago in with about 350 other species (Lo¨ve 1984). The majority of these the transition of early humans from hunter/gatherers to species are wild, but some—particularly those belonging to pastoralists/farmers. Recent research has revealed the iden- the genera Agropyron, Elymus, Leymus and Psathyrostachys—are tity of some of the main genes responsible for domestica- economically significant as perennial, fodder grasses (Kawahara tion. Two of the major domestication events in barley were 2009, Knu¨pffer 2009). The barley crop is grown mainly as grain (i) the failure of the spike to disarticulate and (ii) the for animal feed and as a source of malt for brewing, while the six-rowed spike. The former mutation increased grain yield wheat crop is largely used as a source of flour for the production by preventing grain loss after maturity, while the latter re- of baked goods or pasta.