bluuebunny/crossref_metadata_2025_split huggingface dataset:
Indices of bird‐habitat preference from field surveys of birds and remote sensing of land cover: a study of south‐eastern England with wider implications for conservation and biodiversity assessment
Authors: Fuller Robin M. , Devereux Bernard J. , Gillings Simon , Amable Gabriel S. , Ross A. Hill  
Published: May 2005

ABSTRACTAim  This paper describes the development of novel indices of bird‐habitat preference to examine bird species’ use of habitats and their distributions relative to habitats. It assesses the implications for bird conservation regionally and the scope for biodiversity assessments generally.Location  A 200 km by 400 km area of farmland with seminatural and urban areas, covering south‐eastern England.Methods  Cluster analysis was used to link birds to landscapes. Cluster centroid coordinate values were processed to derive indices of bird‐habitat preference. Further developments assessed the relative values of individual habitats for birds.Results  Clustering objectively linked birds to landscapes. Maps of the clusters showed strong regional patterns associated with distinctive habitat assemblages. Derived indices related bird species directly to individual habitats and habitats to birds. Even rare species and scarce habitats showed successful linkages, often to each other. Objective corroboration strongly supported the associations of coastal, wetland, urban and woodland birds and habitats; but, it suggested that farmland birds, whose numbers have nearly halved since 1977, may prefer alternative habitats.Main conclusions  Land cover maps from remote sensing provide an effective way to link birds to habitats and vice versa. Thus, generalized habitat maps might be used to extrapolate localized or sample‐based bird observations or the results of autecological studies, helping to predict and understand bird distributions in the wider countryside. The weak links between farmland birds and farmland habitats in a region dominated by farming, suggests that reasons for the decline in farmland birds may be deep seated and thus hard to reverse. The procedures described are repeatable elsewhere and applicable more generally to evaluate landscapes and biodiversity. It is suggested that remote sensing could rarely be bettered as a means of assessing habitats, comprehensively, over wide areas, in most parts of the world.
Local vs. landscape controls on diversity: a test using surface‐dwelling soil macroinvertebrates of differing mobility
Authors: Dauber Jens , Purtauf Tobias , Allspach Andreas , Frisch Johannes , Voigtländer Karin , Wolters Volkmar 
Published: May 2005

ABSTRACTAim A better understanding of the processes driving local species richness and of the scales at which they operate is crucial for conserving biodiversity in cultivated landscapes. Local species richness may be controlled by ecological processes acting at larger spatial scales. Very little is known about the effect of landscape variables on soil biota. The aim of our study was to partly fill this gap by relating the local variation of surface‐dwelling macroarthropod species richness to factors operating at the habitat scale (i.e. land use and habitat characteristics) and the landscape scale (i.e. composition of the surrounding matrix).Location An agricultural landscape with a low‐input farming system in Central Hesse, Germany.Methods We focused on five taxa significantly differing in mobility and ecological requirements: ants, ground beetles, rove beetles, woodlice, and millipedes. Animals were caught with pitfall traps in fields of different land use (arable land, grassland, fallow land) and different habitat conditions (insolation, soil humidity). Composition of the surrounding landscape was analysed within a radius of 250 m around the fields.Results Factors from both scales together explained a large amount of the local variation in species richness, but the explanatory strength of the factors differed significantly among taxa. Land use particularly affected ground beetles and woodlice, whereas ants and rove beetles were more strongly affected by habitat characteristics, namely by insolation and soil characteristics. Local species richness of diplopods depended almost entirely on the surrounding landscape. In general, the composition of the neighbouring landscape had a lower impact on the species richness of most soil macroarthropod taxa than did land use and habitat characteristics.Main conclusions We conclude that agri‐environment schemes for the conservation of biodiversity in cultivated landscapes have to secure management for both habitat quality and heterogeneous landscape mosaics.
Microbial macroecology: highly structured prokaryotic soil assemblages in a tropical deciduous forest
Authors: Noguez Ana M. , Arita Héctor T. , Escalante Ana E. , Forney Larry J. , García‐Oliva Felipe , Souza Valeria 
Published: May 2005

ABSTRACTAim To assess the hypothesis that free‐living prokaryotes show a pattern of ‘no biogeography’ by examining the scaling of soil prokaryotic diversity and by comparing it with other groups’ biogeographical patterns.Location Two sites in the tropical deciduous forest of Chamela, Jalisco, on the western coast of Mexico.Methods We examined the diversity and distribution of soil prokaryotes in two 8 × 8 m quadrats divided in such manner that we could sample at four spatial scales. Restriction fragment length polymorphisms of16S rRNAgenes were used to define operational taxonomic units (OTUs) that we used in lieu of species to assess diversity.Results We found highly structured species assemblages that allowed us to reject multiple predictions of the hypothesis that soil bacteria show ‘no biogeography’. The frequency distribution of range size (measured as the occupancy of quadrats) of OTUs followed a hollow curve similar to that of vertebrates on continents. Assemblages showed high levels of beta diversity and a non‐random nested pattern of diversity. OTU diversity scaled with area followed a power function with slopesz = 0.42 and 0.47.Main conclusions We demonstrate a non‐ubiquitous dispersal for soil prokaryotes, which suggests a complex biogeography similar to that found for terrestrial vertebrates.
Atlantic capelin (Mallotus villosus) tetranucleotide microsatellites
Authors: GORDOS K. , KENCHINGTON E. L. , HAMILTON L. C. , NAKASHIMA B. S. , TAGGART C. T. 
Published: May 2005

AbstractTwelve microsatellite loci developed for Atlantic capelin (Mallotus villosus) using magnetic bead hybridization enrichment for tetranucleotide microsatellites revealed five loci composed of single repeat elements and six composed of complex repeats. Forty‐four beach‐spawning females from three different northwestern Atlantic Newfoundland beach‐spawning populations were screened at each locus. Loci were polymorphic (two to 59 alleles per locus) and all but two exhibited high heterozygosity (0.86–1). The loci are considered suitable for addressing questions related to fine‐scale population structure, spawning fidelity and survivorship/kinship issues.
Isolation and characterization of polymorphic microsatellite loci from an EST‐library of red sea bream (Chrysophrys major) and cross‐species amplification
Authors: CHEN S. L. , LIU Y. G. , XU M. Y. , LI J. 
Published: May 2005

AbstractMicrosatellite markers have been developed from a complementary DNA (cDNA) library of red sea bream, Chrysophrys major. Twenty‐eight microsatellites were selected for designing microsatellite primers, of which 11 gave working primer pairs. Observed and expected heterozygosities varied from 0.33 to 1.00 and from 0.38 to 0.83, respectively. Five additional fish species assessed for cross‐species amplification revealed between one and six positive amplifications and between 0 and 6 polymorphic loci per species.
Isolation and characterization of polymorphic microsatellites in Parnassius apollo and Euphydryas aurinia (Lepidoptera)
Authors: PETENIAN FREDERIC , MEGLÉCZ EMESE , GENSON GWENAELLE , RASPLUS JEAN‐YVES , FAURE ERIC 
Published: May 2005

AbstractMicrosatellite loci were developed from Parnassius apollo and Euphydryas aurinia, two endangered Palaearctic butterfly species. Respectively, six and five polymorphic loci were characterized from an enriched partial genomic library. Genetic diversity range from three to 25 alleles for the first species and from seven to 21 for the second. Although the presence of null alleles is suspected, these polymorphic loci are likely to provide important information on the fine scale genetic structure among populations of these species.
Isolation and characterization of microsatellite markers in musk duck (Biziura lobata: Aves), and their application to other waterfowl species
Authors: GUAY P.‐J. , MULDER R. A. 
Published: May 2005

AbstractWe isolated and characterized 11 novel microsatellite loci to study paternity in the Australian musk duck (Biziura lobata), using nonradioactive PCR‐based techniques to screen GA and GAAA repeats enriched genomic DNA libraries. Nine of 11 loci showed no evidence of null alleles and were variable (mean HE = 0.825, mean number of alleles = 9). This set of nine loci is suitable for paternity assignment (exclusion probability for nine unlinked loci = 0.9999). We also demonstrated that many of these loci cross‐amplify in various other waterfowl species.
Characterization of tetranucleotide microsatellite markers in guppy (Poecilia reticulata)
Authors: PATERSON I. G. , CRISPO E. , KINNISON M. T. , HENDRY A. P. , BENTZEN P. 
Published: May 2005

AbstractTen tetranucleotide microsatellite loci are characterized for guppy, Poecilia reticulata, an important model species in the study of adaptation and mating systems. Loci were isolated following a microsatellite enrichment procedure using probe‐labelled magnetic beads. These microsatellites were designed for use in examining gene flow, reproductive isolation, and parentage within natural guppy populations.
M‐AFLP‐based protocol for microsatellite loci isolation in Cynara cardunculus L. (Asteraceae)
Authors: ACQUADRO A. , PORTIS E. , ALBERTINI E. , LANTERI S. 
Published: May 2005

AbstractNine microsatellite markers for Cynara cardunculus L. were developed using a two‐step ‘primer extension’ procedure, based on microsatellite‐amplified fragment length polymorphism (M‐AFLP) technique. In the first step, highly enriched SSR gel profiles were produced and, from the derived sequences of selected bands, forward primers directed towards the microsatellite motif were designed. In the second step, the opposite microsatellite flanking sequence was isolated using a nested approach on a restricted‐ligated genomic fraction. Polymorphism was explored in 24 plants of wild cardoon (Cynara cardunculus L. var. sylvestris) as well as two accessions of both globe artichoke (Cynara cardunculus L. var. scolymus), and cultivated cardoon (Cynara cardunculus L. var. altilis).
Characterization of nuclear microsatellite loci in South American Araucariaceae species
Authors: SALGUEIRO F. , CARON H. , DE SOUZA M. I. F. , KREMER A. , MARGIS R. 
Published: May 2005

AbstractThe Araucariaceae family has only two species in South America: Araucaria angustifolia and Araucaria araucana. Both species are mainly used for timber and have been overexploited in the past. Currently, they are found as fragmented populations and are classified under the International Union for Conservation of Nature and Natural Resources (IUCN) guidelines as vulnerable species. Population fragmentation may seriously affect the genetic diversity of these two species of Araucariaceae and can consequently lead to decreased survival. To better understand the genetic structure of these South American Araucaria species, eight nuclear microsatellites are reported: six new microsatellites loci developed based on a membrane enrichment procedure and two microsatellites loci transferred from the related species, Araucaria cunninghamii.
Isolation and characterization of microsatellite markers inPerilla frutescensBrit
Authors: KWON SOON‐JAE , LEE JU‐KYONG , KIM NAM‐SOO , YU JAE‐WOONG , DIXIT ANUPAM , CHO EUN‐GI , PARK YONG‐JIN 
Published: May 2005

AbstractWe isolated and characterized 13 polymorphic microsatellite primers fromPerilla frutescensBrit. var.frutescensby using a modified method that involves one‐way PCR amplification with single primer prior to enrichment with an ‘oligo hook’. The efficiency of this procedure for isolating unique microsatellite sequences was approximately 77%. The number of alleles per microsatellite locus ranged from three to 10 with an average of 6.5 alleles per locus while fragment size varied from 156 to 298 bp. The observed and expected heterozygosities ranged from 0.52 to 0.86 and 0.52 to 0.89, respectively. These newly isolated microsatellite markers are expected to provide valuable resources for different genetic studies currently underway in ourPerillagenome research program.
Seventy‐five EST‐linked Atlantic salmon (Salmo salar L.) microsatellite markers and their cross‐amplification in five salmonid species
Authors: VASEMÄGI ANTI , NILSSON JAN , PRIMMER CRAIG R. 
Published: May 2005

AbstractAn Atlantic salmon (Salmo salar L.) expressed sequence tag (EST) database consisting of 58 146 ESTs was screened for microsatellite sequences. Subsequent development of 75 polymorphic EST‐associated microsatellite markers in this species is described together with cross‐species amplification results of 133 gene‐associated tandem repeat markers in five salmonid species (Salmo trutta, Oncorhynchus mykiss, Salvelinus aplinus, Thymallus thymallus, Coregonus lavaretus). The number of alleles among EST‐linked microsatellites in Atlantic salmon ranged from two to 41 with an average of 12 alleles per locus. Cross‐species amplification resulted in detection of a total of 111 polymorphic locus‐species combinations (12–32 loci per species).
Identification of 13 polymorphic microsatellite loci in the zebra finch,Taeniopygia guttata(Passeridae, Aves)
Authors: DAWSON DEBORAH A. , CHITTOCK JOHN , JEHLE ROBERT , WHITLOCK APRIL , NOGUEIRA DENISE , PELLATT JAYNE , BIRKHEAD TIM , BURKE TERRY 
Published: May 2005

AbstractPolymorphic microsatellite loci were identified in order to determine paternity in a captive population of the zebra finch,Taeniopygia guttata. Primer sets from 93 published passerine microsatellite sequences were tested for cross‐species amplification. Thirteen loci were found to be polymorphic, of which, eight displayed null alleles and one locus (Ase50) was found to be Z‐chromosome linked.
Microsatellite loci in the eastern form of the giant freshwater prawn (Macrobrachium rosenbergii)
Authors: CHAND VINCENT , DE BRUYN MARK , MATHER PETER B. 
Published: May 2005

AbstractSix microsatellite loci were identified and characterized in the eastern form of the widespread and commercially important giant freshwater prawn (Macrobrachium rosenbergii). The loci were detected by randomly screening for dinucleotide and trinucleotide repeat units within a partial genomic library developed for the species. In a sample of 29 prawns, number of alleles and heterozygosity per locus ranged from 12 to 18 and from 0.66 to 0.90, respectively. These markers provide powerful tools for the conservation and management of wild stocks, the improvement of cultured stocks of M. rosenbergii, and for investigating evolutionary processes underlying genetic divergence among populations.
Characterization of polymorphic microsatellite markers in the Indian meal moth, Plodia interpunctella (Hübner)
Authors: GRACE TONY , KAMBHAMPATI SRINIVAS , SUBRAMANYAM BHADRIRAJU 
Published: May 2005

AbstractThe Indian meal moth, Plodia interpunctella (Hübner), is a serious and widespread pest of stored food commodities worldwide. Studies on the population genetics and breeding structure of P. interpunctella are lacking. Understanding the breeding structure of this pest has implications for its management. Fifteen microsatellite loci were isolated, cloned and characterized using an enrichment method. Forty individuals from six subpopulations were tested for polymorphism. Nine loci were found to be polymorphic. The number of alleles varied from three to six per locus.
Isolation and characterization of microsatellite loci in the striped mullet, Mugil cephalus
Authors: MIGGIANO E. , LYONS R. E. , LI Y. , DIERENS L. M. , CROSETTI D. , SOLA L. 
Published: May 2005

AbstractForty‐three microsatellites were isolated from grey mullet (Mugil cephalus) of Mediterranean origin using the standard enrichment methods followed by enhanced chemiluminescence for the rapid identification of clones containing microsatellites. Eleven microsatellites were characterized to assess genetic diversity of different populations surrounding the island of Sardinia in Italy. The versatility of these markers was also assessed using an Australian population. All 11 microsatellites were highly polymorphic with a mean heterozygosity of 0.834. The number of alleles ranged from 14 to 38 in the Sardinian populations and from 11 to 25 in the Australian samples.
Development and characterization of microsatellite markers from the yellow passion fruit (Passiflora edulis f. flavicarpa)
Authors: OLIVEIRA E. J. , PÁDUA J. G. , ZUCCHI M. I. , CAMARGO L. E. A. , FUNGARO M. H. P. , VIEIRA M. L. C. 
Published: May 2005

AbstractHere we described the development of the first set of Passiflora microsatellite loci isolated from an enriched genomic library. A sample of 43 individuals from 12 accessions of the yellow passion fruit was used to characterize those loci, which revealed up to 20 alleles per locus. Two loci were monomorphic. The observed (HO) and expected (HE) heterozygosities were very similar, as expected for a self‐incompatible species. Allelic diversity (HT) was 0.444. This set of markers will permit genetic structure analyses of cultivated and wild populations of Passiflora, and contribute for integrating genetic maps based on dominant markers, as they can provide bridge alleles.
Isolation and cross‐familial amplification of 41 microsatellites for the brook charr (Salvelinus fontinalis)
Authors: PERRY GUY M. L. , KING TIM L. , ST.‐CYR JÉRÔME , VALCOURT MANON , BERNATCHEZ LOUIS 
Published: May 2005

AbstractThe brook charr (Salvelinus fontinalis; Osteichthyes: Salmonidae) is a phenotypically diverse fish species inhabiting much of North America. But relatively few genetic diagnostic resources are available for this fish species. We isolated 41 microsatellites from S. fontinalis polymorphic in one or more species of salmonid fish. Thirty‐seven were polymorphic in brook charr, 15 in the congener Arctic charr (Salvelinus alpinus) and 14 in the lake charr (Salvelinus namaycush). Polymorphism was also relatively high in Oncorhynchus, where 21 loci were polymorphic in rainbow trout (Oncorhynchus mykiss) and 16 in cutthroat trout (Oncorhynchus clarkii) but only seven and four microsatellite loci were polymorphic in the more distantly related lake whitefish (Coregonus clupeaformis) and Atlantic salmon (Salmo salar), respectively. One duplicated locus (Sfo228Lav) was polymorphic at both duplicates in S. fontinalis.
Isolation and characterization of six microsatellite markers in the large yellow croaker (Pseudosciaena crocea Richardson)
Authors: GUO WEI , WANG ZHI‐YONG , WANG YI‐LEI , ZHANG ZI‐PING , GUI JIAN‐FANG 
Published: May 2005

AbstractSix polymorphic microsatellite markers were isolated and characterized using an enriched library technique in the large yellow croaker (Pseudosciaena crocea Richardson, 1864), a commercially important marine fish in China. They showed PIC (polymorphism information content) ranging from 0.064 to 0.885 (average of 0.580) and allele numbers ranging from two to 13 (average of 7.5), which were useful for the studies on population genetics and selective breeding of the large yellow croaker.
Development and characterization of simple sequence repeat DNA markers for Zelkova serrata
Authors: FUKATSU E. , ISODA K. , HIRAO T. , TAKAHASHI M. , WATANABE A. 
Published: May 2005

AbstractWe developed 14 microsatellite loci from an enriched genomic DNA library of a broad‐leaved deciduous tree, Zelkova serrata. Of 198 clones from the library, 112 contained microsatellite repeat regions. The M13‐tailed primer method was used for economy. Sequence‐specific primer pairs were designed for 58 of 76 candidate clones. Fourteen of these primer pairs successfully amplified polymorphic single loci among 34 individuals collected from the Kanto breeding region in Japan. The expected heterozygosity for the 14 microsatellite markers ranged from 0.378 to 0.876, suggesting that these will prove valuable for breeding and ecological studies on Z. serrata.
Isolation of five polymorphic microsatellite loci in the invasive weed Ambrosia artemisiifolia (Asteraceae) using an enrichment protocol
Authors: GENTON B. J. , JONOT O. , THÉVENET D. , FOURNIER E. , BLATRIX R. , VAUTRIN D. , SOLIGNAC M. , GIRAUD T. 
Published: May 2005

AbstractWe report the development of five microsatellite markers for the invasive North American native plant Ambrosia artemisiifolia (Asteraceae). An enrichment protocol was used to isolate microsatellite loci and polymorphism was explored with samples from 16 natural populations collected in the native range, across North America, and in an invaded area along the Rhône Valley in France. In these areas, we found a high level of polymorphism within population and significant heterozygote deficiencies.
Sixty simple sequence repeat markers for use in the Festuca–Lolium complex of grasses
Authors: LAUVERGEAT V. , BARRE P. , BONNET M. , GHESQUIÈRE M. 
Published: May 2005

AbstractSo far only very few simple sequence repeat (SSR) markers developed from grass species have had their primer sequences published. To make more markers available to the scientific community, we isolated and sequenced 256 microsatellite‐containing clones from four genome libraries of a Lolium multiflorum×Festuca glaucescens F1 hybrid following enrichment in (TC)n, (TG)n, or both repeats. In this work, we report the primer sequences of 60 SSRs including preliminary results of polymorphism for mapping.
DNA microsatellites in the neon damselfish (Pomacentrus coelestis)
Authors: MILLER‐SIMS VANESSA , DELANEY MARTHA , ATEMA JELLE , KINGSFORD MICHAEL J. , GERLACH GABRIELE 
Published: May 2005

AbstractTo determine the degree of genetic exchange between populations of the neon damselfish, Pomacentrus coelestis, among different reefs of the Great Barrier Reef, Australia, we characterized seven polymorphic microsatellite loci.
Isolation and characterization of 12 tetranucleotide repeat microsatellite loci from the green‐backed tit (Parus monticolus)
Authors: WANG MEI‐TING , HSU YU‐CHENG , YAO CHENG‐TE , LI SHOU‐HSIEN 
Published: May 2005

AbstractFrom a partial genomic library enriched for GATA short tandem repeats, we developed 12 polymorphic microsatellite loci from the green‐backed tit (Parus monticolus). We characterized these loci by genotyping 30 adult individuals with unknown relationship. The number of alleles ranged from four to 17 per locus (mean = 9.3 alleles) and the observed heterozygosity for each locus ranged from 0.633 to 0.933 (mean = 0.789). All loci conformed to Hardy–Weinberg expectations. Four of 66 possible pairwise comparisons between loci showed significant gametic disequilibrium.