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Journal articles on the topic 'Secondary digest-amplified fragment length polymorphism'

Author: Grafiati

Published: 4 June 2021

Last updated: 1 February 2022

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1

Talebi, R., A. M. Naji, and F. Fayaz. "Geographical patterns of genetic diversity in cultivated chickpea (Cicer arietinum L.) characterized by amplified fragment length polymorphism." Plant, Soil and Environment 54, No. 10 (October 24, 2008): 447–52. http://dx.doi.org/10.17221/399-pse.

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The objective of this study was to evaluate the genetic relationships of 28 chickpea accessions from diverse origin using AFLP markers. On average, 13 polymorphic bands per primer were observed in AFLP analysis. The average polymorphic information content (PIC) was 0.71, ranging from 0.48 to 0.92. The lowest and the highest PIC value were recorded for primer P-GAG/M-GC and P-AT/M-GC, respectively. The average GD, based on Fst values among the 21 accessions was 0.42, ranging from 0.61 to 0.16. From the UPGMA dendrogram, it is discernible that material taken for the analysis can be divided in fo

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Geiger, Anne, Gérard Cuny, and Roger Frutos. "Two Tsetse Fly Species, Glossina palpalis gambiensis and Glossina morsitans morsitans, Carry Genetically Distinct Populations of the Secondary Symbiont Sodalis glossinidius." Applied and Environmental Microbiology 71, no. 12 (December 2005): 8941–43. http://dx.doi.org/10.1128/aem.71.12.8941-8943.2005.

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ABSTRACT Genetic diversity among Sodalis glossinidius populations was investigated using amplified fragment length polymorphism markers. Strains collected from Glossina palpalis gambiensis and Glossina morsitans morsitans flies group into separate clusters, being differentially structured. This differential structuring may reflect different host-related selection pressures and may be related to the different vector competences of Glossina spp.

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Han, Zhi-Qiang, Gang Han, Tian-Xiang Gao, Zhi-Yong Wang, and Bo-Nian Shui. "Genetic population structure of Liza haematocheilus in north-western Pacific detected by amplified fragment length polymorphism markers." Journal of the Marine Biological Association of the United Kingdom 93, no. 2 (August 9, 2012): 373–79. http://dx.doi.org/10.1017/s0025315412000872.

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Several divergent sympatry mtDNA lineages have been described in redlip mullet Liza haematocheilus, and this high inter-lineage divergence raises questions about the taxonomic status of L. haematocheilus lineages in the north-western Pacific. In this study, the amplified fragment length polymorphism technique was employed to examine genetic structure of L. haematocheilus and estimate the level of independence of the different mtDNA lineages in the north-western Pacific. A total of 186 bands were amplified from 91 individuals among 8 populations by 4 primer combinations and the percentage of po

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Alamalakala, L., S. R. Skoda, and J. E. Foster. "Amplified fragment length polymorphism used for inter- and intraspecific differentiation of screwworms (Diptera: Calliphoridae)." Bulletin of Entomological Research 99, no. 2 (November 12, 2008): 139–49. http://dx.doi.org/10.1017/s0007485308006202.

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AbstractMorphologically, early immature stages of the economically important pest called screwworms, Cochliomyia hominivorax (Coquerel) (Diptera: Calliphoridae), and non-pest secondary screwworms, Cochliomyia macellaria (Fabricius) (Diptera: Calliphoridae), are nearly indistinguishable. Correct identification is crucial to the ongoing eradication and exclusion program protecting the United States, Mexico and Central America from reinvasion of screwworms persistent in South America and the Caribbean. Amplified fragment length polymorphism (AFLP) polymerase chain reaction was used to differentia

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Messick, Joanne B., Linda M. Berent, and Sandra K. Cooper. "Development and Evaluation of a PCR-Based Assay for Detection of Haemobartonella felis in Cats and Differentiation of H. felis from Related Bacteria by Restriction Fragment Length Polymorphism Analysis." Journal of Clinical Microbiology 36, no. 2 (1998): 462–66. http://dx.doi.org/10.1128/jcm.36.2.462-466.1998.

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The 16S rRNA gene of Haemobartonella felis was amplified by using universal eubacterial primers and was subsequently cloned and sequenced. Based on this sequence data, we designed a set ofH. felis-specific primers. These primers selectively amplified a 1,316-bp DNA fragment of the 16S rRNA gene of H. felis from each of four experimentally infected cats at peak parasitemia. No PCR product was amplified from purified DNA ofEperythrozoon suis, Mycoplasma genitalium, andBartonella bacilliformis. Blood from the experimental cats prior to infection was negative for PCR products and was greatly dimin

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Egert, Markus, and Michael W. Friedrich. "Formation of Pseudo-Terminal Restriction Fragments, a PCR-Related Bias Affecting Terminal Restriction Fragment Length Polymorphism Analysis of Microbial Community Structure." Applied and Environmental Microbiology 69, no. 5 (May 2003): 2555–62. http://dx.doi.org/10.1128/aem.69.5.2555-2562.2003.

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ABSTRACT Terminal restriction fragment length polymorphism (T-RFLP) analysis of PCR-amplified genes is a widely used fingerprinting technique in molecular microbial ecology. In this study, we show that besides expected terminal restriction fragments (T-RFs), additional secondary T-RFs occur in T-RFLP analysis of amplicons from cloned 16S rRNA genes at high frequency. A total of 50% of 109 bacterial and 78% of 68 archaeal clones from the guts of cetoniid beetle larvae, using MspI and AluI as restriction enzymes, respectively, were affected by the presence of these additional T-RFs. These peaks

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Spiegel, S., E. M. Kovalenko, A. Varga, and D. James. "Detection and Partial Molecular Characterization of Two Plum pox virus Isolates from Plum and Wild Apricot in Southeast Kazakhstan." Plant Disease 88, no. 9 (September 2004): 973–79. http://dx.doi.org/10.1094/pdis.2004.88.9.973.

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Plum pox virus (PPV) was detected in wild apricot and cultivated plum maintained in a germ plasm collection in Kazakhstan. Both isolates were typed as D strain, with no evidence of recombination. The virus was detected by triple-antibody sandwich enzyme-linked immunosorbent assay (ELISA) utilizing the universal PPV-specific monoclonal antibody (MAb) 5B as the secondary antibody, and by reverse-transcription polymerase chain reaction (RT-PCR) assay using primers that amplified a 243-bp fragment in the C-terminus of the coat protein (CP) coding region. Immunocapture (IC) RT-PCR was used to detec

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Collins, Alex, C. Ada N. Okoli, Anne Morton, David Parry, Simon G. Edwards, and Dez J. Barbara. "Isolates of Verticillium dahliae Pathogenic to Crucifers Are of at Least Three Distinct Molecular Types." Phytopathology® 93, no. 3 (March 2003): 364–76. http://dx.doi.org/10.1094/phyto.2003.93.3.364.

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Diverse isolates of the soilborne wilt fungi Verticillium dahliae and V. albo-atrum were studied to understand the nature and origins of those infecting cruciferous hosts. All isolates from cruciferous crops produced microsclerotia, and the majority produced long conidia with a high nuclear DNA content; these isolates were divided into two groups by amplified fragment length polymorphism (AFLP) analysis. One group could be subdivided by other criteria such as rRNA sequences and mitochondrial DNA restriction fragment length polymorphism (RFLP) analysis. Two crucifer isolates were short spored a

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van Treuren, R., E. C. de Groot, I. W. Boukema, C. C. M. van de Wiel, and Th J. L. van Hintum. "Marker-assisted reduction of redundancy in a genebank collection of cultivated lettuce." Plant Genetic Resources 8, no. 2 (January 5, 2010): 95–105. http://dx.doi.org/10.1017/s1479262109990220.

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To reduce the level of redundancy in a collection of cultivated lettuce, data from 160 amplified fragment length polymorphism (AFLP) fragments and 10 polymorphic microsatellites were used in combination with passport data and morphological data, the latter obtained from an experimental field trial performed for verification purposes. Based on the observed distribution of the number of marker differences between and within accessions, a minimum of three AFLP differences and two microsatellite differences were regarded as levels warranting distinction between accessions in the redundancy analysi

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Dueñas, Juan C. Rondan, Cristina N. Gardenal, Guillermo Albrieu Llinás, and Graciela M. Panzetta-Dutari. "Structural organization of the mitochondrial DNA control region in Aedes aegypti." Genome 49, no. 8 (August 1, 2006): 931–37. http://dx.doi.org/10.1139/g06-053.

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The complete A+T - rich region of Aedes aegypti mitochondrial DNA has been cloned and sequenced. In Argentinean populations of the species, a polymorphism in the length of the amplified fragment was observed. Nucleotide sequence comparison of the shortest and longest A+T - rich amplified fragments detected revealed the presence of 2 types of tandemly repeated blocks. The size variation observed in natural populations is mainly due to the presence of a variable number of a 181 bp tandem repeat unit, located toward the 12S rRNA gene end. The size of the longest A+T - rich region was of 2070 bp,

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Hagidimitriou, Marianna, Andreas Katsiotis, George Menexes, Constantinos Pontikis, and Michael Loukas. "Genetic Diversity of Major Greek Olive Cultivars Using Molecular (AFLPs and RAPDs) Markers and Morphological Traits." Journal of the American Society for Horticultural Science 130, no. 2 (March 2005): 211–17. http://dx.doi.org/10.21273/jashs.130.2.211.

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The aim of the present study was to develop a reliable reference database to discriminate between the major Greek olive (Olea europaea L.) cultivars and reveal their genetic relationships, since Greece is considered a secondary center of diversity. In order to establish genetic relationships among the 26 Greek and eight international cultivars, four amplified fragment length polymorphism (AFLP) primer pairs, 12 randomly amplified polymorphic DNA (RAPD) primers, along with measurements from 10 morphological traits, were used. A total of 576 AFLP and 113 RAPD markers were produced. Genetic simil

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Canady, Michael A., Vladimir Meglic, and Roger T. Chetelat. "A library of Solanum lycopersicoides introgression lines in cultivated tomato." Genome 48, no. 4 (August 1, 2005): 685–97. http://dx.doi.org/10.1139/g05-032.

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A set of introgression lines (ILs), containing individual chromosome segments from the wild nightshade Solanum lycopersicoides bred into the genetic background of cultivated tomato (Lycopersicon esculentum), has been developed. A primary group of 56 lines was selected for maximum representation of the S. lycopersicoides genome (~96% of the total map units), homozygosity, and a minimum number of introgressed segments per line. A secondary set of 34 lines provides increased map resolution in certain regions. Approximately 34% of the lines were sterile in the homozygous condition, but could be ma

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Ney, Gideon, and Johannes Schul. "Epigenetic and genetic variation between two behaviorally isolated species of Neoconocephalus (Orthoptera: Tettigonioidea)." Journal of Orthoptera Research 28, no. 2 (May 17, 2019): 11–19. http://dx.doi.org/10.3897/jor.28.28888.

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Epigenetic variation allows for rapid changes in phenotypes without alterations to nucleotide sequences. These epigenetic signatures may diverge over time among isolated populations. Epigenetic incompatibility following secondary contact between these populations could result in the evolution of reproductive isolating mechanisms. If epigenetic incompatibility drove the evolution of species isolating mechanisms, we expect to see significant epigenetic differentiation between these species. Alternatively, epigenetic variation could be the result of predominantly environmental variables and not a

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14

Cavers, S., C. Navarro, P. Hopkins, R. A. Ennos, and A. J. Lowe. "Regional and Population-scale Influences on Genetic Diversity Partitioning within Costa Rican Populations of the Pioneer Tree Vochysia ferruginea Mart." Silvae Genetica 54, no. 1-6 (December 1, 2005): 258–64. http://dx.doi.org/10.1515/sg-2005-0037.

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Abstract The neotropical pioneer species Vochysia ferruginea is locally important for timber and is being increasingly exploited. The sustainable utilisation of this species would benefit from an understanding of the level and partitioning of genetic diversity within remnant and secondary regrowth populations. We used data from total genome (amplified fragment length polymorphism, AFLP) and chloroplast genome markers to assay diversity levels within seven Costa Rican populations. Significant chloroplast differentiation between Atlantic and Pacific watersheds was observed, suggesting divergent

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Han, Zhiqiang, Zhiyong Wang, Tianxiang Gao, Takashi Yanagimoto, and Koji Iida. "Assessing the Speciation of a Cold Water Species, Japanese Sand Lance Ammodytes personatus, in the Northwestern Pacific by AFLP Markers." Animals 8, no. 12 (November 28, 2018): 224. http://dx.doi.org/10.3390/ani8120224.

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The use of molecular techniques in biodiversity research increasingly results in the recognition of multiple divergent mitochondrial DNA (mtDNA) lineages below the morphospecies level. However, the overlapping distribution of multiple divergent lineages raises the question of whether some of these lineages are in fact cryptic species. Assessing the status of these divergent lineages, delimiting evolutionarily significant units (ESUs), and identifying the dominant evolutionary and ecological drivers are critical components of successful wildlife conservation and management strategies. Amplified

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Lee, Ing-Ming, Kristi D. Bottner, Joseph E. Munyaneza, Robert E. Davis, James M. Crosslin, Lindsey J. du Toit, and Todd Crosby. "Carrot Purple Leaf: A New Spiroplasmal Disease Associated with Carrots in Washington State." Plant Disease 90, no. 8 (August 2006): 989–93. http://dx.doi.org/10.1094/pd-90-0989.

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During the growing seasons of 2003 and 2004, a disease occurred in several carrot crops in south central Washington with symptoms suggestive of infection by phytopathogenic mollicutes (phytoplasmas and spiroplasmas). In the fall, many affected carrot plants exhibited extensive purple or yellow-purple leaf discoloration, general stunting of shoots and taproots, and formation of bunchy, fibrous secondary roots. For detection of the putative causal agents, polymerase chain reaction (PCR) assays were performed using primers specific to phytoplasmas as well as primers specific to plant-pathogenic s

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Prohens, Jaume, José M. Blanca, and Fernando Nuez. "Morphological and Molecular Variation in a Collection of Eggplants from a Secondary Center of Diversity: Implications for Conservation and Breeding." Journal of the American Society for Horticultural Science 130, no. 1 (January 2005): 54–63. http://dx.doi.org/10.21273/jashs.130.1.54.

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Eggplant (Solanum melongena L.) was introduced by the Arabs into Spain. Since then, many local cultivars have arisen. These materials are grouped in four cultivar groups: “round,” “semi-long,” “long,” and “listada de Gandía.” We studied the morphological and molecular [amplified fragment length polymorphism (AFLP)] diversity of a collection of 28 Spanish traditional cultivars of eggplant. Four eggplant accessions from different origins were used as controls and three scarlet eggplant (Solanum aethiopicum L.) accessions as outgroups. Morphology and AFLP markers showed that S. melongena and S.

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18

Sonnante, G., A. De Paolis, and D. Pignone. "Relationships among artichoke cultivars and some related wild taxa based on AFLP markers." Plant Genetic Resources 1, no. 2-3 (August 2003): 125–33. http://dx.doi.org/10.1079/pgr200319.

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AbstractArtichoke, Cynara cardunculus var. scolymus is a diploid outcrossing species, originated in the Mediterranean basin, which has been much appreciated both for its tasty heads and pharmaceutical properties since ancient times. The species includes two more botanical varieties: C. cardunculus var. altilis, the cultivated leafy cardoon and C. cardunculus var. sylvestris, the presumed wild progenitor of artichoke, which are completely interfertile with the cultivated globe artichoke and all together they form the primary gene pool of artichoke. The secondary gene pool includes at least seve

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Bukholm, Geir, Tone Tannæs, Anne Britt Bye Kjelsberg, and Nils Smith-Erichsen. "An Outbreak of Multidrug-ResistantPseudomonas AeruginosaAssociated with Increased Risk of Patient Death in an Intensive Care Unit." Infection Control & Hospital Epidemiology 23, no. 8 (August 2002): 441–46. http://dx.doi.org/10.1086/502082.

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Objective:To investigate an outbreak of multidrug-resistantPseudomonas aeruginosain an intensive care unit (ICU).Design:Epidemiologic investigation, environmental assessment, and ambidirectional cohort study.Setting:A secondary-care university hospital with a 10-bed ICU.Patients:All patients admitted to the ICU receiving ventilator treatment from December 1,1999, to September 1, 2000.Results:An outbreak in an ICU with multidrug-resistant isolates ofP. aeruginosabelonging to one amplified fragment-length polymorphism (AFLP)–defined genetic cluster was identified, characterized, and cleared. Mol

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Dunkle, Larry D., and Morris Levy. "Genetic Relatedness of African and United States Populations of Cercospora zeae-maydis." Phytopathology® 90, no. 5 (May 2000): 486–90. http://dx.doi.org/10.1094/phyto.2000.90.5.486.

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Two taxonomically identical but genetically distinct sibling species, designated groups I and II, of Cercospora zeae-maydis cause gray leaf spot of maize in the United States. Isolates of the gray leaf spot pathogen from Africa were compared with isolates from the United States by amplified fragment length polymorphism (AFLP) analysis and restriction digests of internal transcribed spacer (ITS) regions and 5.8S ribosomal DNA (rDNA), as well as by morphological and cultural characteristics. The isolates from Africa were morphologically indistinguishable from the U.S. isolates in both groups, bu

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Zeller, Kurt A., Robert L. Bowden, and John F. Leslie. "Diversity of Epidemic Populations of Gibberella zeae from Small Quadrats in Kansas and North Dakota." Phytopathology® 93, no. 7 (July 2003): 874–80. http://dx.doi.org/10.1094/phyto.2003.93.7.874.

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Gibberella zeae (anamorph Fusarium graminearum) causes Fusarium head blight (FHB) of wheat and barley and has been responsible for several billion dollars of losses in the United States since the early 1990s. We isolated G. zeae from the top, middle, and bottom positions of wheat spikes collected from 0.25-m2 quadrats during severe FHB epidemics in a single Kansas (KS) field (1993) and in a single North Dakota (ND) field (1994). Three amplified fragment length polymorphism (AFLP) primer pairs were used to resolve 94 polymorphic loci from 253 isolates. Members of a subset of 26 isolates also we

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Yue, H. N., Y. F. Wu, Y. Z. Shi, K. K. Wu, and Y. R. Li. "First Report of Paulownia Witches'-Broom Phytoplasma in China." Plant Disease 92, no. 7 (July 2008): 1134. http://dx.doi.org/10.1094/pdis-92-7-1134a.

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Paulownia witches'-broom (PaWB) is one of the most important diseases affecting Paulownia tomentosa trees in China. According to 2006 statistics, the disease has affected 880,000 ha of trees for timber production causing billions of dollars in economic losses. During the spring and summer of 2006, a survey was done in Shaanxi Province to confirm phytoplasma infection of paulownia trees exhibiting symptoms of witches'-broom, stunting, yellowing, and proliferating secondary shoots. Foliage samples were collected from 24 symptomatic and 8 symptomless paulownia plants in eight different production

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Duarte, V., E. G. Silva, I. C. R. Hass, I. P. Bedendo, and E. W. Kitajima. "First Report of a Group 16SrIII-B Phytoplasma Associated with Decline of China Tree in Brazil." Plant Disease 93, no. 6 (June 2009): 666. http://dx.doi.org/10.1094/pdis-93-6-0666b.

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China tree (Melia azedarach L.), originally from Asia, is an exotic deciduous species in Brazil and is used as an ornamental shade tree in the southern region of the country. Since 2005, plants displaying yellowing, little leaves, witches' broom, and decline have been observed in the State of Rio Grande do Sul. In the streets and avenues of the capital city of Porto Alegre, there are approximately 173 tree species and China tree (6.57% of all trees) is among the top 10 (80,000 China trees and most are symptomatic). Plants with those symptoms are very distinctive and have been found also in the

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Viprakasit, Vip, Alison T. Merryweather-Clarke, Yingyong Chinthammitr, Lisa Schimanski, Hal Drakesmith, Somdet Srichairatanakool, Chanin Limwongse, Alain Townsend, and Kathryn J. H. Robson. "Molecular Diagnosis of the First Ferroportin Mutation (C326Y) in the Far East Causing a Dominant Form of Inherited Iron Overload." Blood 104, no. 11 (November 16, 2004): 3204. http://dx.doi.org/10.1182/blood.v104.11.3204.3204.

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Abstract Genetic hemochromatosis (HH) is a common inherited disorder in populations of European origin in which different types of genetic hemochromatosis (type 1–4) have been characterized. Most hemochromatosis-type 1 patients are homozygotes or compound heterozygotes for two HFE mutations C282Y and H63D. Studies of several non-HFE iron overload families led to identification of mutations in hemojuvelin and hepcidin (juvenile form-HFE2A and B), transferrin receptor 2 (HFE3) and ferroportin (HFE4) as a cause of different forms of hemochromatosis. In the Far East, inherited hemochromatosis has

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Frary, Anne, Hasan Özgür Şığva, Ayfer Tan, Tuncer Taşkın, Abdullah İnal, Sevgi Mutlu, Mehmet Haytaoğlu, and Sami Doğanlar. "Molecular Genetic Diversity in the Turkish National Melon Collection and Selection of a Preliminary Core Set." Journal of the American Society for Horticultural Science 138, no. 1 (January 2013): 50–56. http://dx.doi.org/10.21273/jashs.138.1.50.

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Turkey is a secondary center of diversity for melon (Cucumis melo) and is home to a variety of regional morphotypes. This diversity is housed in a national germplasm repository with more than 500 accessions. Molecular genetic variability of 209 melon genotypes from 115 accessions of this collection was characterized using amplified fragment length polymorphisms (AFLPs). Ten AFLP primer combinations yielded 279 reproducible fragments, which were used for dendrogram and principal coordinate analyses. These analyses showed two major clusters of Turkish melons: one group contained highly similar g

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Antonishyn, Nick A., Ryan R. McDonald, Edward L. Chan, Greg Horsman, Carla E. Woodmansee, Pamela S. Falk, and C. Glen Mayhall. "Evaluation of Fluorescence-Based Amplified Fragment Length Polymorphism Analysis for Molecular Typing in Hospital Epidemiology: Comparison with Pulsed-Field Gel Electrophoresis for Typing Strains of Vancomycin-Resistant Enterococcus faecium." Journal of Clinical Microbiology 38, no. 11 (2000): 4058–65. http://dx.doi.org/10.1128/jcm.38.11.4058-4065.2000.

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Fluorescence-based amplified fragment length polymorphism (fbAFLP) is a novel assay based on the fluorescent analysis of an amplified subset of restriction fragments. The fbAFLP assay involves the selective PCR amplification of restriction fragments from a total digest of genomic DNA. The ligation of adapters with primer-specific sites coupled with primers containing selective nucleotides allowed the full potential of PCR to be realized while maintaining the advantages of restriction endonuclease analysis. Fluorescence-based fragment analysis with polyacrylamide gel electrophoresis provides th

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Viana, F. M. P., J. E. Cardoso, H. A. O. Saraiva, M. A. S. V. Ferreira, R. L. R. Mariano, and L. C. Trindade. "First Report of a Bacterial Leaf and Fruit Spot of Cashew Nut (Anacardium occidentale) Caused by Xanthomonas campestris pv. mangiferaeindicae in Brazil." Plant Disease 91, no. 10 (October 2007): 1361. http://dx.doi.org/10.1094/pdis-91-10-1361c.

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In 2003 and 2004, leaves and young fruits of cashew nut plants showing an undescribed disease symptom were observed on plants of an early-dwarf clone in a commercial orchard in Ceará and Piauí states in northeastern Brazil. Initial symptoms consisted of angular, water-soaked, dark-to-black spots on the leaf and at the mid-rib vein surrounding the leaf veins. Eventually, lesions also extended from the mid-rib to the secondary veins, delineating the vein system of the leaf. In young, green fruits, symptoms were large, dark, oily spots surrounded by conspicuous water-soaked areas. A yellow-pigmen

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Levy, Laurene, Lisa A. Castlebury, Lori M. Carris, Robert J. Meyer, and Guillermo Pimentel. "Internal Transcribed Spacer Sequence-Based Phylogeny and Polymerase Chain Reaction-Restriction Fragment Length Polymorphism Differentiation of Tilletia walkeri and T. indica." Phytopathology® 91, no. 10 (October 2001): 935–40. http://dx.doi.org/10.1094/phyto.2001.91.10.935.

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A polymerase chain reaction-restriction fragment length polymorphism assay to distinguish Tilleita walkeri, a rye grass bunt fungus that occurs in the southeastern United States and Oregon, from T. indica, the Karnal bunt fungus, is described. The internal transcribed spacer (ITS) region of the ribosomal DNA repeat unit was amplified and sequenced for isolates of T. indica, T. walkeri, T. horrida, and a number of other taxa in the genus Tilletia. A unique restriction digest site in the ITS1 region of T. walkeri was identified that distinguishes it from the other taxa in the genus. Phylogenetic

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Huys, G., L. Rigouts, K. Chemlal, F. Portaels, and J. Swings. "Evaluation of Amplified Fragment Length Polymorphism Analysis for Inter- and Intraspecific Differentiation ofMycobacterium bovis, M. tuberculosis, andM. ulcerans." Journal of Clinical Microbiology 38, no. 10 (2000): 3675–80. http://dx.doi.org/10.1128/jcm.38.10.3675-3680.2000.

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The usefulness of amplified fragment length polymorphism (AFLP) analysis was evaluated for the discrimination of Mycobacterium bovis (17 strains), M. tuberculosis (15 strains), andM. ulcerans (12 strains) at the inter- and intraspecific level. The AFLP technique is a whole-genome coverage genotypic fingerprinting method based on the selective PCR amplification of modified restriction fragments obtained through a double enzymatic digest and subsequent ligation of double-stranded restriction site-specific adapter oligonucleotides. Selective amplification ofApaI/TaqI templates with primer combina

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Vandamme, P., L. Debruyne, E. De Brandt, and E. Falsen. "Reclassification of Bacteroides ureolyticus as Campylobacter ureolyticus comb. nov., and emended description of the genus Campylobacter." International Journal of Systematic and Evolutionary Microbiology 60, no. 9 (September 1, 2010): 2016–22. http://dx.doi.org/10.1099/ijs.0.017152-0.

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The protein profiles, genomic amplified fragment length polymorphism patterns and 16S rRNA and cpn60 gene sequences of a diverse collection of 26 Bacteroides ureolyticus strains, along with published data on their DNA base, respiratory quinone and cellular fatty acid compositions, were used to reassess the taxonomy of this bacterial species. The results demonstrate that this organism is most appropriately allocated in the genus Campylobacter. The presence of much higher amounts of 18 : 1ω7c in its cellular fatty acid profile and its ability to digest gelatin and casein are the characteristics

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PAUL, CATHERINE J., SHULIN TRAN, KEVIN J. TAM, and JOHN W. AUSTIN. "A Unique Restriction Site in the flaA Gene Allows Rapid Differentiation of Group I and Group II Clostridium botulinum Strains by PCR–Restriction Fragment Length Polymorphism Analysis." Journal of Food Protection 70, no. 9 (September 1, 2007): 2133–39. http://dx.doi.org/10.4315/0362-028x-70.9.2133.

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Clostridium botulinum produces the potent botulinum neurotoxin, the causative agent of botulism. Based on distinctive physiological traits, strains of C. botulinum can be divided into four groups: however, only groups I and II are associated with human illness. Alignment of the flaA gene sequences from 40 group I and 40 group II strains identified a single BsrG1 restriction cut site that was present at base pair 283 in all group II flaA sequences and was not found in any group I sequence. The flaA gene was amplified by rapid colony PCR from 22 group I strains and 18 group II strains and digest

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Fajardo, Diego, Don R. La Bonte, and Robert L. Jarret. "553 Genetic Diversity in Papua New Guinea Sweetpotato Germplasm." HortScience 35, no. 3 (June 2000): 491B—491. http://dx.doi.org/10.21273/hortsci.35.3.491b.

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The USDA gene bank currently maintains 668 accessions of cultivated sweetpotato and 219 accessions of related Ipomoea species. Information on the genetic diversity of the collection does not exist due to funding constraints. The development of a core collection would provide a subset of accessions that represent the genetic diversity of the main collection with a minimum of repetitiveness. The small size of the core collection would facilitate the evaluation of the accessions for economically important traits. The objective of this research is to develop a core collection of Papua New Guinea s

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Fajardo, Diego, Don R. La Bonte, and Robert L. Jarret. "Genetic Diversity in Papua New Guinea Sweetpotato Germplasm." HortScience 35, no. 4 (July 2000): 551C—551b. http://dx.doi.org/10.21273/hortsci.35.4.551c.

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The USDA gene bank currently maintains 668 accessions of cultivated sweetpotato and 219 accessions of related Ipomoea species. Information on the genetic diversity of the collection does not exist due to funding constraints. The development of a core collection would provide a subset of accessions that represent the genetic diversity of the main collection with a minimum of repetitiveness. The small size of the core collection would facilitate the evaluation of the accessions for economically important traits. The objective of this research is to develop a core collection of Papua New Guinea s

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Lucardi, Rima D., Lisa E. Wallace, and Gary N. Ervin. "Patterns of Genetic Diversity in Highly Invasive Species: Cogongrass (Imperata cylindrica) Expansion in the Invaded Range of the Southern United States (US)." Plants 9, no. 4 (March 31, 2020): 423. http://dx.doi.org/10.3390/plants9040423.

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The spatial expansions of invasive organisms in the novel range are generally expected to follow an isolation-by-distance relationship (IBD) if the invasion is biologically driven; however, many invasions are facilitated anthropogenically. This research focused on the extant expansion patterns of cogongrass (Imperata cylindrica). Cogongrass is a widespread invasive species throughout the southern United States (US). Patterns of infestation vary among US states. Cogongrass is pyrogenic, and its invasion threatens softwood (Pinus spp.) plantations, a substantial economic market for this US regio

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Richmond, Jonathan Q., and Elizabeth L. Jockusch. "Body size evolution simultaneously creates and collapses species boundaries in a clade of scincid lizards." Proceedings of the Royal Society B: Biological Sciences 274, no. 1619 (May 8, 2007): 1701–8. http://dx.doi.org/10.1098/rspb.2007.0364.

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Speciation is generally viewed as an irreversible process, although habitat alterations can erase reproductive barriers if divergence between ecologically differentiated species is recent. Reversed speciation might also occur if geographical contact is established between species that have evolved the same reproductive isolating barrier in parallel. Here, we demonstrate a loss of intrinsic reproductive isolation in a clade of scincid lizards as a result of parallel body size evolution, which has allowed for gene flow where large-bodied lineages are in secondary contact. An mtDNA phylogeny conf

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Volpini, Lays Paula Bondi, Jerusa Araújo Dias, Luciana Bueno de Freitas, Maria Carmen Lopes Ferreira Silva, Angélica Espinosa Miranda, and Liliana Cruz Spano. "Viral load and high prevalence of HR-HPV52 and 58 types in black women from rural communities." BMC Infectious Diseases 21, no. 1 (April 17, 2021). http://dx.doi.org/10.1186/s12879-021-06042-6.

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Abstract Background The high-risk human papillomavirus (HR-HPV) infection is the main cause of cervical cancer development, and the most common types were included in the last approved nonavalent vaccine (9vHPV). Geographical, socioeconomic and ethnic barriers in developing countries challenge primary and secondary prevention measures of cervical cancer. We aimed to determine the prevalence of HPV infection and the viral load of HR-HPV 9vHPV-related types black women resident in rural semi-isolated communities. Methods A descriptive study was conducted with 273 cervical samples of women from r

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Suga, Haruhisa, Mitsuhiro Arai, Emi Fukasawa, Keiichi Motohashi, Hiroyuki Nakagawa, Hideaki Tateishi, Shin-ichi Fuji, Masafumi Shimizu, Koji Kageyama, and Mitsuro Hyakumachi. "Genetic Differentiation Associated with Fumonisin and Gibberellin Production in JapaneseFusarium fujikuroi." Applied and Environmental Microbiology 85, no. 1 (October 19, 2018). http://dx.doi.org/10.1128/aem.02414-18.

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ABSTRACTFusarium fujikuroiis a pathogenic fungus that infects rice. It produces several important mycotoxins, such as fumonisins. Fumonisin production has been detected in strains of maize, strawberry, and wheat, whereas it has not been detected in strains from rice seedlings infested with bakanae disease in Japan. We investigated the genetic relationships, pathogenicity, and resistance to a fungicide, thiophanate-methyl (TM), in 51 fumonisin-producing strains and 44 nonproducing strains. Phylogenetic analyses based on amplified fragment length polymorphism (AFLP) markers and two specific gene

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TORUAN-MATHIUS, Nurita, ENDANG-YUNIASTUTI, Ridwan SETIAMIHARJA, and Murdaningsih H. KARMANA. "Analisis genotip normal dan abnormal pada klon kelapa sawit (Elaeis guineensis Jacq.) dengan Amplified Fragment Length Polymorphism (AFLP) Analysis normal and abnormal genotypes of oil palm clones (Elaeis guineensis Jacq.) by Amplified Fragment Length Polymorphism (AFLP)." E-Journal Menara Perkebunan 73, no. 1 (March 12, 2016). http://dx.doi.org/10.22302/iribb.jur.mp.v73i1.159.

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SummaryTissue culture-derived plants of oil palmmay develop abnormal flowers in whichprimordial stamens are converted into carpel-liketissue or mantled fruits, and sterile male flowers.This abnormality can be heritable, individualpalm may show variation in mantling andreversion to the normal phenotype over time hasbeen observed. The aim of these experiments wasto analyze the differences between normal andabnormal genotypes by DNA-AFLP. DNA wasisolated from young fruits of three clones,MK152, MK209, and MK 212 each of themconsisted of normal fruits, abnormal fruits andsterile male flowers. The

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TORUAN-MATHIUS, Nurita, ENDANG-YUNIASTUTI, Ridwan SETIAMIHARJA, and Murdaningsih H. KARMANA. "Analisis genotip normal dan abnormal pada klon kelapa sawit (Elaeis guineensis Jacq.) dengan Amplified Fragment Length Polymorphism (AFLP) Analysis normal and abnormal genotypes of oil palm clones (Elaeis guineensis Jacq.) by Amplified Fragment Length Polymorphism (AFLP)." E-Journal Menara Perkebunan 73, no. 1 (March 12, 2016). http://dx.doi.org/10.22302/ppbbi.jur.mp.v73i1.159.

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SummaryTissue culture-derived plants of oil palmmay develop abnormal flowers in whichprimordial stamens are converted into carpel-liketissue or mantled fruits, and sterile male flowers.This abnormality can be heritable, individualpalm may show variation in mantling andreversion to the normal phenotype over time hasbeen observed. The aim of these experiments wasto analyze the differences between normal andabnormal genotypes by DNA-AFLP. DNA wasisolated from young fruits of three clones,MK152, MK209, and MK 212 each of themconsisted of normal fruits, abnormal fruits andsterile male flowers. The

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Li, Jiao-Sheng, Luo-Yu Wu, Hui Zhang, Xiu-Shi Song, Jian-Xin Wang, Mingguo Zhou, and Yi-ping Hou. "PCR-RFLP for detection of Fusarium graminearum genotypes with resistance to phenamacril." Plant Disease, October 12, 2020. http://dx.doi.org/10.1094/pdis-06-20-1156-re.

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Phenamacril is a cyanoacrylate fungicide that provides excellent control of Fusarium head blight (FHB) or wheat scab, which is caused predominantly by Fusarium graminearum and Fusarium asiaticum. Previous studies revealed that codon mutations of the myosin-5 gene of Fusarium spp. conferred resistance to phenamacril in vitro lab experiments. In this study, PCR-RFLP (polymerase chain reaction-restriction fragment length polymorphism) was developed to detect three common mutations (A135T, GCC to ACC at codon 135; S217L, TCA to TTA at codon 217, and E420K, GAA to AAA at codon 420) in F. graminearu

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