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  • 1.
    Abjornsson, K
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Wagner, BMA
    Axelsson, A
    Bjerselius, R
    Olsen, KH
    Responses of Acilius sulcatus (Coleoptera: Dytiscidae) to chemical cues from perch (Perca fluviatilis)1997In: OECOLOGIA, ISSN 0029-8549, Vol. 111, no 2, p. 166-171Article in journal (Refereed)
    Abstract [en]

    In this study we tested the hypothesis that the presence of chemical stimuli from a hungry predator would initiate anti-predator responses, while stimuli from a satiated predator would not. We used chemical stimuli released from starved perch (Perca fluvi

  • 2.
    Abraham, D
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Ryrholm, N
    Wittzell, H
    Holloway, JD
    Scoble, MJ
    Lofstedt, C
    Molecular phylogeny of the subfamilies in geometridae (Geometroidea : Lepidoptera)2001In: MOLECULAR PHYLOGENETICS AND EVOLUTION, ISSN 1055-7903, Vol. 20, no 1, p. 65-77Article in journal (Refereed)
    Abstract [en]

    Molecular sequence data from three gene fragments were used to examine critically a provisional phylogenetic classification based on morphological characters of the Geometridae, one of the most species-rich families of moths. The sister group relationship

  • 3.
    Abrahamsson, K., Choo, K.-S., Pedersén, M., Johansson, G. and Snoeijs, P.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Plant Ecology. PLANT ECOLGY.
    Effects of temperature on the production of hydrogen peroxide and volatile halocarbons by brackish-water algae2003In: Phytochemistry, Vol. 64, p. 725-734Article in journal (Refereed)
  • 4.
    Abramsson-Zetterberg, L
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Zetterberg, G
    Sundell-Bergman, S
    Grawe, J
    Absence of genomic instability in mice following prenatal low dose-rate gamma-irradiation2000In: INTERNATIONAL JOURNAL OF RADIATION BIOLOGY, ISSN 0955-3002, Vol. 76, no 7, p. 971-977Article in journal (Refereed)
    Abstract [en]

    Purpose: To determine whether mice exposed to an extended low dose of gamma-irradiation during most of their prenatal period express increased frequencies-of micronucleated polychromatic erythrocytes (fMPCE) and/or micronucleated normochromatic erythrocyt

  • 5.
    Admassu, Demeke
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology.
    Ahlgren, Ingemar
    Department of Ecology and Evolution, Limnology.
    Growth of juvenile tilapia, Oreochromis niloticus L. from Lakes Zwai, Langeno and Chamo (Ethiopian rift valley) based on otolith microincrement analysis2000In: Ecology of Freshwater Fish, Vol. 9, no 3, p. 127-137Article in journal (Refereed)
    Abstract [en]

    Age and growth of juvenile tilapia, Oreochromis niloticus, from Lakes Zwai, Langeno and Chamo (Ethiopia) were studied from microincrements in otoliths. Growth in length was best described by the Gompertz model. Average growth rate of the fish was most rap

  • 6.
    Admassu, Demeke
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Casselman, JM
    Otolith age determination for adult tilapia, Oreochromis niloticus L. from Lake Awassa (Ethiopian Rift Valley) by interpreting biannuli and differentiating biannual recruitment2000In: Hydrobiologia, Vol. 418, p. 15-24Article in journal (Refereed)
    Abstract [en]

    Age of mature Oreochromis niloticus in Lake Awassa, Ethiopia, was estimated by analysing optical macrozones (translucent and opaque) in sagittal otoliths from fish sampled over a 12-month period. Seasonal record on the type of macrozone at the edge of oto

  • 7.
    Ahlgren, G
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology.
    Ahlgren, I
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology.
    Hernández, S
    Mejia, M.
    Fatty acid quality of seston and its effects on small fish in the lakes Xolotlán and Cocibolca, Nicaragua.2002In: Verh. Internat. Verein. Limnol., Vol. 28, p. 786-791Article in journal (Refereed)
  • 8.
    Ahlgren, Gunnel
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Carlstein, M
    Gustafsson, Inga-Britt
    Effects of natural and commercial diets on the fatty acid content of European graylin1999In: Journal of Fish Biology, Vol. 55, p. 1142-1155Article in journal (Refereed)
  • 9.
    Ahlgren, Gunnel
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology. Limnologi.
    Goedkoop, Willem
    Markensten, Hampus
    Department of Ecology and Evolution, Limnology. Limnologi.
    Sonesten, Lars
    Boberg, Mats
    Seasonal variations in food quality for pelagic and benthic invertebrates in Lake Erken - the role of fatty acids1997In: FRESHWATER BIOLOGY, ISSN 0046-5070, Vol. 38, no 3, p. 555-570Article in journal (Refereed)
    Abstract [en]

    1. Plankton net samples and sedimenting matter in traps from mesotrophic Lake Erken, Sweden, were analysed for carbon (C), nitrogen (N) phosphorus (P), total lipids and fatty acid (FA) content to determine what differences and seasonal changes might exist

  • 10.
    Ahlgren, Gunnel
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology.
    Hyenstrand, Per
    Vrede, Tobias
    Department of Ecology and Evolution, Limnology.
    Karlsson, E
    Zetterberg, S.
    Nutritional quality of Scenedesmus quadricauda (Chlorophyceae) grown in different nitrogen regimes and tested on Daphnia2001In: International Association of Theoretical and Applied Limnology, Vol. 27, no 3, p. 1234-1238Article in journal (Refereed)
  • 11.
    Ahlgren, Gunnel
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Sonesten, Lars
    Boberg, Mats
    Gustafsson, Inga-Britt
    Fatty acid content of some freshwater fish in lakes of different trophic levels -a bottom up effect?1996In: Ecology of Freshwater Fish, Vol. 5, p. 15-27Article in journal (Refereed)
  • 12.
    Ahlgren, Gunnel
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Zeipel, Katarina
    Gustafsson, Inga-Britt
    Phosphorus limitation effects on the fatty acid content and nutritional quality of a green alga and a diatom1997In: Verh. Internat. Verein. Limnol., Vol. 26, p. 1659-1664Article in journal (Refereed)
  • 13.
    Ahlgren, Ingemar
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Chacón, C
    García, R
    Mairena, I
    Rivas, K
    Zelaya, A
    Sediment microbial activity in temperate and tropical lakes, a comparison between Swedish and Nicaraguan lakes1997In: Verh. Internat. Verein. Limnol., Vol. 26, p. 429-434Article in journal (Refereed)
  • 14.
    Ahlgren, Ingemar
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology. Limnologi.
    Eriksson, R
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology. Limnologi.
    Moreno, L
    Pacheco, L
    Montenegro-Guillén, S
    Vammen, K
    Pelagic food web interactions in Lake Cocibolca, Nicaragua2001In: Verh. Internat. Verein. Limnol., Vol. 27, no 4, p. 1740-1746Article in journal (Refereed)
  • 15.
    Ahlén, I
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Distribution and habitats of Rana dalmatina in Sweden.1997In: Rana, Sonderheft, Vol. 2, p. 13-22Article in journal (Other scientific)
  • 16.
    Ahlén, I
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Fältobservationer av ultraljud hos flygande fjärilar.1997In: Entom Tidskr, Vol. 118, p. 197-199Article in journal (Other scientific)
  • 17.
    Ahlén, I
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Långbensgrodan. I: Inventering av hässlen på Ölands mittland.1998In: Länsstyrelsen i Kalmar län meddelar, Vol. 8, p. 18-19Report (Other scientific)
  • 18.
    Ahlén, I
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Migratory behaviour of bats at south Swedish coasts.1997In: Jnt J Mamm Biol, Vol. 62, p. 375-380Article in journal (Other scientific)
  • 19.
    Ahlén, I
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Ölands fladdermusfauna.1997In: Länsstyrelsen i Kalmar län meddelar, Vol. 7, p. 1-26Report (Other scientific)
  • 20.
    Ahlén, I
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Baagöe, HJ
    Use of ultrasound detectors for bat studies in Europe - experiences from field identifications, surveys and monitoring.1999In: Acta Chiropterol, Vol. 1, p. 137-150Article in journal (Other scientific)
  • 21.
    Ahlén, I
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Cederroth, C
    Varfågel Lanius excubitor av rasen homeyeri gästade Öland 1998.1999In: Calidris, Vol. 28, p. 24-26Article in journal (Other scientific)
  • 22.
    AHNESJO, I
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolutionary Biology.
    TEMPERATURE AFFECTS MALE AND FEMALE POTENTIAL REPRODUCTIVE RATES DIFFERENTLY IN THE SEX-ROLE REVERSED PIPEFISH, SYNGNATHUS-TYPHLE1995In: BEHAVIORAL ECOLOGY, ISSN 1045-2249, Vol. 6, no 2, p. 229-233Article in journal (Other academic)
    Abstract [en]

    The differences in potential reproductive rate between the sexes can be used to predict the operational sex ratio and the patterns and intensity of mating competition and hence sexual selection in a population. This article describes how one environmental

  • 23.
    Ahnesjo, Ingrid
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolutionary Biology.
    Apparent resource competition among embryos in the brood pouch of a male pipefish1996In: BEHAVIORAL ECOLOGY AND SOCIOBIOLOGY, ISSN 0340-5443, Vol. 38, no 3, p. 167-172Article in journal (Other academic)
    Abstract [en]

    Embryo success was studied in the paternally brooding pipefish Syngnathus typhle. During brooding, which lasts about a month, males provide embryos in their brood pouch with nutrients and oxygen via a placenta-like structure. Egg size depends on female si

  • 24.
    Ahnesjo, Ingrid
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolutionary Biology.
    Kvarnemo, C
    Merilaita, S
    Using potential reproductive rates to predict mating competition among individuals qualified to mate2001In: BEHAVIORAL ECOLOGY, ISSN 1045-2249, Vol. 12, no 4, p. 397-401Article in journal (Refereed)
    Abstract [en]

    The potential reproductive rate (PRR), which is the offspring production per unit time each sex would achieve if unconstrained by mate availability, often differs between the sexes. An increasing sexual difference in PRR predicts an intensified mating com

  • 25. Aikio, S
    et al.
    Pakkasmaa, S
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Population Biology. populationsbiologi.
    Relatedness and competitive assymetry - implications for growth and population dynamics2003In: Oikos, Vol. 100, p. 283-290Article in journal (Refereed)
  • 26.
    Akhverdyan, M
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Fredga, K
    EM studies of female meiosis in wood lemmings with different sex chromosome constitutions2001In: JOURNAL OF EXPERIMENTAL ZOOLOGY, ISSN 0022-104X, Vol. 290, no 5, p. 504-516Article in journal (Refereed)
    Abstract [en]

    The chromosomes were studied throughout meiotic prophase by electron microscopy of surface-spread oocytes from one XX, four X*X, and three X*Y female wood lemmings, Myopus schisticolor. The X* chromosome had originated from X by a deletion and an inversio

  • 27.
    Alanärä, Anders
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Winberg, Svante
    Brännäs, Eva
    Kiessling, Anders
    Hoglund, Erik
    Elofsson, Ulf
    Feeding behaviour, brain serotonergic activity levels, and energy reserves of Arctic char (Salvelinus alpinus) within a dominance hierarchy1998In: CANADIAN JOURNAL OF ZOOLOGY-REVUE CANADIENNE DE ZOOLOGIE, ISSN 0008-4301, Vol. 76, no 2, p. 212-220Article in journal (Refereed)
    Abstract [en]

    The relationships between feeding activity, brain serotonergic activity level, and energy reserves in eight groups of Arctic char (Salvelinus alpinus) were evaluated using self-feeders In combination with passive integrated transponder (PIT) tags. Seroton

  • 28.
    Alcantara, JM
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Rey, PJ
    Valera, F
    Sanchez-Lafuente, AM
    Factors shaping the seedfall pattern of a bird-dispersed plant2000In: ECOLOGY, ISSN 0012-9658, Vol. 81, no 7, p. 1937-1950Article in journal (Refereed)
    Abstract [en]

    The spatial distribution of seeds can influence several parameters of the natural regeneration of plant populations. Factors shaping seedfall patterns have been typically explored from the tree perspective (seed shadow) or from the population perspective

  • 29.
    Alexandersson, R
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Johnson, SD
    Pollinator-mediated selection on flower-tube length in a hawkmoth-pollinated Gladiolus2002In: Proceedings of the Royal Society of London B, Vol. 269, p. 631-636Article in journal (Refereed)
  • 30.
    Allander, K., Sundberg, J.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Temporal changes and reliability of blood parasite levels in captive yellowhammers (Emberiza citrinella).1997In: Journal of Avian Biology, no 28, p. 325-330.Article in journal (Refereed)
  • 31.
    Allander, K
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Schmid-Hempel, P
    Immune defence reaction in bumble-bee workers after a previous challenge and parasitic coinfection2000In: FUNCTIONAL ECOLOGY, ISSN 0269-8463, Vol. 14, no 6, p. 711-717Article in journal (Refereed)
    Abstract [en]

    1. A successful immune response requires the functioning of a range of physiological mechanisms and is therefore supposed to be costly in terms of limited resources that could be used otherwise, such as energy or nutrients. Because immunity is costly, imm

  • 32.
    Alsmark, Cecilia
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Comparative Genomics of Obligate and Facultative Intracellular Parasites2002Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    The α-proteobacteria Rickettsia prowazekii and Bartonella henselae are the causative agents of epidemic typhus and cat scratch disease respectively. Whereas R. prowazekii is an obligate intracellular parasite, B. henselae can live and proliferate both outside and inside the eukaryotic host cell. Besides the obvious medical interest to identify the complete gene set of two human pathogens, their genome sequences are also important for the study of evolutionary processes. Both R. prowazekii and B. henselae have small genomes, but their last common ancestor of these two bacteria was most likely a free-living organism with a substantially larger genome.

    The aim of this thesis is to compare the complete genomes of R. prowazekii and B. henselae and to decipher the evolutionary processes leading to the adaptation to an intracellular lifestyle. The working hypothesis was that the facultative intracellular B. henselae is an intermediate between a free living bacteria and the obligate R. prowazekii, which is corroborated. B. henselae has a broader biosynthetic repertoire than R. prowazekii, including the presence of genes for glycolysis and de novo biosynthesis of purines and pyrimidines. However, both bacteria have reduced gene sets for biosynthesis of amino acids and cofactors compared to free-living bacteria.

    Comparisons of gene order in bacteria reveal that several operons are well conserved between distantly related species. The genome sequences of R. prowazekii and B. henselae show that many of the operons that are usually conserved, are broken and rearranged in these species. One of the mechanisms of reductive evolution include intra-chromosomal recombination between repeated loci. This process expels one of the repeats and cause rearrangements in the gene order of the flanking regions. While the R. prowazekii genome almost completely lack repeated sequences, the B. henselae genome is rich in repeats. These repeats are, however, most often located within regions associated with pathogenicity islands. The higher number of scrambled operons, and the lower number of repeats, in R. prowazekii compared to B. henselae imply that the reductive process has gone further in the former species.

  • 33.
    Alstrom, P
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Olsson, U
    Golden-spectacled Warbler systematics2000In: IBIS, Vol. 142, no 3, p. 495-500Other (Other scientific)
  • 34.
    Alström, P. & Mild, K
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. SYSTEMATIC ZOOLOGY.
    Pipits and Wagtails of Europe, Asia and North America: identification and systematics. London: . 496 pp.2003Book (Refereed)
  • 35.
    Alström, P. & Olsson, U.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    The Golden-spectacled Warbler: a complex of sibling species, including a previously undescribed species.1999In: Ibis, no 141, p. 545-568Article in journal (Refereed)
  • 36.
    Alström, P.
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Ranft, R.
    The use of sounds in avian systematics and the importance of bird sound archives2003In: Bull. Brit. Orn. Club, ISSN 0007-1595, Vol. 123A, p. 114-135Article in journal (Refereed)
  • 37.
    Alström, Per
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology, Department of Systematic Zoology.
    Species Limits and Systematics in Some Passerine Birds2002Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    I use morphological, vocal, molecular, behavioural, ecological and distributional data to re-evaluate the systematics of three passerine bird groups, the Mirafraassamica complex (bush-larks), the genus Seicercus ("spectacled-warblers"; with emphasis on the the S. burkii complex) and the genus Motacilla (wagtails). Two new species are described: Seicercus soror and Motacilla samveasnae. I propose that the polytypic species M. assamica should be treated as four separate species: M. assamica, M. affinis, M. microptera and M. marionae (it is also remarked that the proper name of the latter is M. erythrocephala). That is primarily supported by vocalisations and mitochondrial DNA. The latter data set also suggests that M. assamica sensu lato is paraphyletic, since M. erythroptera, which is always treated as a separate species, is nested within the M. assamica complex. I propose that the polytypic species S. burkii comprises six sibling species. Some of these are found to breed sympatrically, although mainly or entirely segregated altitudinally. Mitochondrial DNA suggests that the S. burkii complex is non-monophyletic, and also that the divergence of the different taxa is much older than indicated by morphological and vocal data. According to the molecular phylogeny, both the genera Seicercus and its assumed sister genus Phylloscopus are paraphyletic. That is corroborated by independent data. The phylogenetic study of the genus Motacilla reveals incongruence between mitochondrial DNA, nuclear DNA and non-molecular data. I conclude that the nuclear gene tree reflects the organismal phylogeny more faithfully than the mitochondrial gene tree. The latter is likely to have been affected by introgressive hybridisation, possibly also stochastic lineage sorting. The most remarkable result that is strongly supported by both mitochondrial and nuclear DNA is that M. flava is non-monophyletic.

  • 38.
    Amcoff, P
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology.
    Elofsson, U O E
    Börjesson, H
    Norrgren, L
    Nilsson, G
    Alterations of dopaminergic and serotonergic activity in the brain of sea-run Baltic salmon suffering a thiamine deficiency-related disorder.2002In: J. Fish Biol, Vol. 60, p. 1407-1416Article in journal (Refereed)
  • 39.
    Amiri, H.
    et al.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Alsmark, U. C. M.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Andersson, S. G. E.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Proliferation and deterioration of Rickettsia palindromic elements2002In: Molecular biology and evolution, ISSN 0737-4038, E-ISSN 1537-1719, Vol. 19, no 8, p. 1234-1243Article in journal (Refereed)
    Abstract [en]

    It has been suggested that Rickettsia Palindromic Elements (RPEs) have evolved as selfish DNA that mediate protein sequence evolution by being targeted to genes that code for RNA and proteins. Here, we have examined the phylogenetic depth of two RPEs that are located close to the genes encoding elongation factors Tu (tuf) and G (fus) in Rickettsia. An exceptional organization of the elongation factor genes was found in all 11 species examined, with complete or partial RPEs identified downstream of the tuf gene (RPE-tuf) in six species and of the fus gene (RPE-fus) in 10 species. A phylogenetic reconstruction shows that both RPE-tuf and RPE-fus have evolved in a manner that is consistent with the expected species divergence. The analysis provides evidence for independent loss of RPE-tuf in several species, possibly mediated by short repetitive sequences flanking the site of excision. The remaining RPE-tuf sequences evolve as neutral sequences in different stages of deterioration. Likewise, highly fragmented remnants of the RPE-fus sequence were identified in two species. This suggests that genome-specific differences in the content of RPEs are the result of recent loss rather than recent proliferation.

  • 40.
    Amiri, H.
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Andersson, S. G. E.
    Rickettsia: The highly rearranged cousin of mitochondria2001In: Recent Res. Dev. Microbiol., Vol. 5, p. 321-329Article in journal (Refereed)
  • 41.
    Amiri, H.
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. MOLECULAR EVOLUTION.
    Andersson, S. G. E.
    Rickettsia: The highly rearranged cousin of mitochondria.2001In: Recent Res. Devel. Microbiology, Vol. 5, p. 321-329Article in journal (Refereed)
  • 42.
    Amiri, H.
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Davids, W.
    Andersson, S. G. E.
    Evolution of intergenic DNA in RickettsiaManuscript (Other academic)
  • 43.
    Amiri, H.
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. MOLECULAR EVOLUTION.
    Davids, W.
    Andersson, S.G.E.
    Birth and death of orphan genes in Rickettsia.2003In: Mol. Biol. Evol., Vol. 20, p. 1575-1587Article in journal (Refereed)
  • 44.
    Amiri, H.
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Karlberg, O.
    Andersson, S. G. E.
    In the phylogenetic footsteps of ATP- ADP translocasesManuscript (Other academic)
  • 45.
    Amiri, H.
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. MOLECULAR EVOLUTION.
    Karlberg, O.
    Andersson, S.G.E.
    Deep origin of plastid/parasite ATP/ADP translocases.2003In: J Mol Evol, Vol. 56, p. 137-150Article in journal (Refereed)
  • 46.
    Amiri, Haleh
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology, Molecular Evolution.
    Patterns and Processes of Molecular Evolution in Rickettsia2002Doctoral thesis, comprehensive summary (Other academic)
    Abstract [en]

    Species of the genus Rickettsia are obligate intracellular parasites of the a-proteobacterial subdivision. It has been suggested that obligate intracellular bacteria have evolved from free-living bacteria with much larger genome sizes. Transitions to intracellular growth habitats are normally associated with radical genomic alterations, particularly genome rearrangements and gene losses.

    This thesis presents a comparative study of evolutionary processes such as gene rearrangements, deletions and duplications in a variety of Rickettsia species. The results show that early intrachromosomal recombination events mediated by duplicated genes and short repeats have resulted in deletions as well as rearrangements. For example, an exceptional organization of the elongation factor genes was found in all species examined, suggesting that this rearrangement event occurred at the early stage of the evolution of Rickettsia. Likewise, it was found that a repetitive element, the so-called Rickettsia Palindromic Element (RPE) flourished prior to species divergence in Rickettsia. Finally, a phylogenetic analysis shows that the duplication events that gave rise to the five genes encoding ATP/ADP transporters occurred long before the divergence of the two major groups of Rickettsia. Taken together, this suggests that Rickettsia have been intracellular parasites for an extensive period of time.

    A detailed analysis of the patterns of nucleotide changes in genes and intergenic regions among the different species provides evidence for a gradual accumulation of short deletions. This suggests that different distributions of genes and repeated sequences in modern Rickettsia species reflect species-specific differences in rates of deterioration rather than variation in rates of intra-genomic sequence proliferation.

    List of papers
    1. A chimeric disposition of the elongation factor genes in Rickettsia prowazekii
    Open this publication in new window or tab >>A chimeric disposition of the elongation factor genes in Rickettsia prowazekii
    Show others...
    1996 In: J. Bacteriol., Vol. 178, p. 6192-6199Article in journal (Refereed) Published
    Identifiers
    urn:nbn:se:uu:diva-89688 (URN)
    Available from: 2002-03-06 Created: 2002-03-06Bibliographically approved
    2. Proliferation and deterioration of Rickettsia palindromic elements
    Open this publication in new window or tab >>Proliferation and deterioration of Rickettsia palindromic elements
    2002 (English)In: Molecular biology and evolution, ISSN 0737-4038, E-ISSN 1537-1719, Vol. 19, no 8, p. 1234-1243Article in journal (Refereed) Published
    Abstract [en]

    It has been suggested that Rickettsia Palindromic Elements (RPEs) have evolved as selfish DNA that mediate protein sequence evolution by being targeted to genes that code for RNA and proteins. Here, we have examined the phylogenetic depth of two RPEs that are located close to the genes encoding elongation factors Tu (tuf) and G (fus) in Rickettsia. An exceptional organization of the elongation factor genes was found in all 11 species examined, with complete or partial RPEs identified downstream of the tuf gene (RPE-tuf) in six species and of the fus gene (RPE-fus) in 10 species. A phylogenetic reconstruction shows that both RPE-tuf and RPE-fus have evolved in a manner that is consistent with the expected species divergence. The analysis provides evidence for independent loss of RPE-tuf in several species, possibly mediated by short repetitive sequences flanking the site of excision. The remaining RPE-tuf sequences evolve as neutral sequences in different stages of deterioration. Likewise, highly fragmented remnants of the RPE-fus sequence were identified in two species. This suggests that genome-specific differences in the content of RPEs are the result of recent loss rather than recent proliferation.

    National Category
    Biochemistry and Molecular Biology
    Identifiers
    urn:nbn:se:uu:diva-89689 (URN)12140235 (PubMedID)
    Available from: 2002-03-06 Created: 2002-03-06 Last updated: 2017-12-14Bibliographically approved
    3. In the phylogenetic footsteps of ATP- ADP translocases
    Open this publication in new window or tab >>In the phylogenetic footsteps of ATP- ADP translocases
    Manuscript (Other academic)
    Identifiers
    urn:nbn:se:uu:diva-89690 (URN)
    Available from: 2002-03-06 Created: 2002-03-06 Last updated: 2010-01-13Bibliographically approved
    4. Evolution of intergenic DNA in Rickettsia
    Open this publication in new window or tab >>Evolution of intergenic DNA in Rickettsia
    Manuscript (Other academic)
    Identifiers
    urn:nbn:se:uu:diva-89691 (URN)
    Available from: 2002-03-06 Created: 2002-03-06 Last updated: 2010-01-13Bibliographically approved
    5. Loss of gene function: Clues from expressed gene fragments in Rickettsia
    Open this publication in new window or tab >>Loss of gene function: Clues from expressed gene fragments in Rickettsia
    2002 (English)In: Trends in Genetics, ISSN 0168-9525, E-ISSN 1362-4555, Vol. 18, no 7, p. 331-334Article in journal (Refereed) Published
    Abstract [en]

    Many obligate intracellular pathogens have small genomes with high fractions of pseudogenes. A recent analysis of gene expression patterns in Rickettsia conorii shows that short open reading frames inside deteriorating genes are occasionally transcribed into RNA. Here, we show that substitution frequencies at nonsynonymous sites are similar for expressed and unexpressed parts of the fragmented genes. We conclude that the observed expression is a temporary stage in the gene degradation process, suggesting that the expressed gene fragments are not functional.

    National Category
    Natural Sciences
    Identifiers
    urn:nbn:se:uu:diva-89692 (URN)10.1016/S0168-9525(02)02685-9 (DOI)
    Available from: 2002-03-06 Created: 2002-03-06 Last updated: 2017-12-14Bibliographically approved
    6. Genome deterioration: Loss of repeated sequences and accumulation of junk DNA
    Open this publication in new window or tab >>Genome deterioration: Loss of repeated sequences and accumulation of junk DNA
    2002 (English)In: Genetica, ISSN 0016-6707, E-ISSN 1573-6857, Vol. 115, no 1, p. 1-12Article in journal (Refereed) Published
    Abstract [en]

    A global survey of microbial genomes reveals a correlation between genome size, repeat content and lifestyle. Free-living bacteria have large genomes with a high content of repeated sequences and self-propagating DNA, such as transposons and bacteriophages. In contrast, obligate intracellular bacteria have small genomes with a low content of repeated sequences and no or few genetic parasites. In extreme cases, such as in the 650 kb-genomes of aphid endosymbionts of the genus Buchnera all repeated sequences above 200bp have been eliminated. We speculate that the initial downsizing of the genomes of obligate symbionts and parasites occurred by homologous recombination at repeated genes, leading to the loss of large blocks of DNA as well as to the consumption of repeated sequences. Further sequence elimination in these small genomes seems primarily to result from the accumulation of short deletions within genic sequences. This process may lead to temporary increases in the genomic content of pseudogenes and 'junk' DNA. We discuss causes and long-term consequences of extreme genome size reductions in obligate intracellular bacteria.

    National Category
    Biochemistry and Molecular Biology
    Identifiers
    urn:nbn:se:uu:diva-89693 (URN)12188042 (PubMedID)
    Available from: 2002-03-06 Created: 2002-03-06 Last updated: 2017-12-14Bibliographically approved
    7. Rickettsia: The highly rearranged cousin of mitochondria
    Open this publication in new window or tab >>Rickettsia: The highly rearranged cousin of mitochondria
    2001 In: Recent Res. Dev. Microbiol., Vol. 5, p. 321-329Article in journal (Refereed) Published
    Identifiers
    urn:nbn:se:uu:diva-89694 (URN)
    Available from: 2002-03-06 Created: 2002-03-06Bibliographically approved
  • 47.
    Anderson, E
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Pollen selection and host-plant recognition in the pollen specialist bee, Dasypoda hirtipes (Melittidae).1997In: Senior Research Thesis, Whitman College, USA, , p. 1-38Report (Other scientific)
  • 48.
    Anderson, J
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology.
    Electrophysiological response of male bumble bees to odors: marking pheromones and volatiles of different chemical classes.1997In: Senior Research Thesis, Whitman College, USA, , p. 1-28Report (Other scientific)
  • 49.
    Anderson, NJ
    et al.
    Uppsala University, Teknisk-naturvetenskapliga vetenskapsområdet, Faculty of Science and Technology, Biology, Department of Evolutionary Biology. Department of Ecology and Evolution, Limnology.
    Blomqvist, Peter
    Renberg, I
    An experimental and palaeoecological study of algal responses to lake acidification and liming in three central Swedish lakes1997In: EUROPEAN JOURNAL OF PHYCOLOGY, ISSN 0967-0262, Vol. 32, no 1, p. 35-48Article in journal (Refereed)
    Abstract [en]

    Contemporary phytoplankton and palaeolimnological studies were made of the algal response to acidification and liming in three lakes in Halsingland, central Sweden (Njupfatet, Sjosjon, Djuptjarn). Surveys and experimental studies of the phytoplankton resp

  • 50. Anderson, Tovi M.
    et al.
    vonHoldt, Bridgett M.
    Candille, Sophie I.
    Musiani, Marco
    Greco, Claudia
    Stahler, Daniel R.
    Smith, Douglas W.
    Padhukasahasram, Badri
    Randi, Ettore
    Leonard, Jennifer A.
    Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolutionary Biology. Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Ecology and Genetics, Evolutionary Biology.
    Bustamante, Carlos D.
    Ostrander, Elaine A.
    Tang, Hua
    Wayne, Robert K.
    Barsh, Gregory S.
    Molecular and Evolutionary History of Melanism in North American Gray Wolves2009In: Science, ISSN 0036-8075, E-ISSN 1095-9203, Vol. 323, no 5919, p. 1339-1343Article in journal (Refereed)
    Abstract [en]

    Morphological diversity within closely related species is an essential aspect of evolution and adaptation. Mutations in the Melanocortin 1 receptor (Mc1r) gene contribute to pigmentary diversity in natural populations of fish, birds, and many mammals. However, melanism in the gray wolf, Canis lupus, is caused by a different melanocortin pathway component, the K locus, that encodes a beta-defensin protein that acts as an alternative ligand for Mc1r. We show that the melanistic K locus mutation in North American wolves derives from past hybridization with domestic dogs, has risen to high frequency in forested habitats, and exhibits a molecular signature of positive selection. The same mutation also causes melanism in the coyote, Canis latrans, and in Italian gray wolves, and hence our results demonstrate how traits selected in domesticated species can influence the morphological diversity of their wild relatives.

1234567 1 - 50 of 1673
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