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Articles de revues sur le sujet « Analysis and molecular identification »

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Auteur : Grafiati
Publié le 4 mai 2024

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1

Alsanie, Walaa, Ebaa Felemban, Mona Farid, Mohamed Hassan, Ayman Sabry et Ahmed Gaber. « Molecular Identification and Phylogenetic Analysis of Multidrug-resistant Bacteria using 16S rDNA Sequencing ». Journal of Pure and Applied Microbiology 12, no 2 (30 juin 2018) : 489–96. http://dx.doi.org/10.22207/jpam.12.2.07.

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Birot, Anne-Marie, Laurent Duret, Laurent Bartholin, Bénédicte Santalucia, Isabelle Tigaud, Jean-Pierre Magaud et Jean-Pierre Rouault. « Identification and molecular analysis of BANP ». Gene 253, no 2 (août 2000) : 189–96. http://dx.doi.org/10.1016/s0378-1119(00)00244-4.

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Nováková, A., K. Šimáčková, J. Bárta et V. Čurn. « Potato variety identification by molecular markers based on retrotransposon analyses ». Czech Journal of Genetics and Plant Breeding 45, No. 1 (11 février 2009) : 1–10. http://dx.doi.org/10.17221/11/2008-cjgpb.

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We analyzed a set of twenty most grown potato (Solanum tuberosum L.) varieties listed in the Czech Variety List using the PCR-IRAP (Inter-Retrotransposon Amplified Polymorphism) method in order to distinguish fast and unambiguously the varieties. In total, 62 polymorphic alleles were amplified using the three primers P-Tst-1, P-Tst-3 and P-Tst-6. The recorded pattern of markers was stable and reproducible. The analyses were repeated three times and identical results were always obtained. The level of polymorphism varied from 11% to 79% depending on the respective primer. All analysed varieties could be reliably distinguished after multivariate statistics have been applied to the data obtained by the PCO and UPGMA analyses. The best resolution of individual varieties was obtained if all three primers were evaluated as a complex. The use of retrotransposon-based markers appears to be suitable for the differentiation of large sets of potato samples and should be an eligible complement to other molecular markers used in potato variety identification such as Simple Sequence Repeats (SSR) and Amplified Fragment Length Polymorphisms (AFLP).
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Duggal, S., et SR Rongpharpi. « Mucor -culture/molecular analysis necessary for identification ». Indian Journal of Medical Microbiology 33, no 5 (2015) : 163. http://dx.doi.org/10.4103/0255-0857.150960.

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Araya-Kojima, Tomoko, Norio Ishibashi, Seiichi Shimamura, Kan Tanaka et Hideo Takahashi. « Identification and Molecular Analysis ofLactococcus lactis rpoDOperon ». Bioscience, Biotechnology, and Biochemistry 59, no 1 (janvier 1995) : 73–77. http://dx.doi.org/10.1271/bbb.59.73.

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Kaminskienė, Evelina, Jana Radzijevskaja, Loreta Griciuvienė, Michal Stanko, Justina Snegiriovaitė, Dalytė Mardosaitė-Busaitienė et Algimantas Paulauskas. « Molecular Identification and Phylogenetic Analysis of Laelapidae Mites (Acari : Mesostigmata) ». Animals 13, no 13 (3 juillet 2023) : 2185. http://dx.doi.org/10.3390/ani13132185.

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The family Laelapidae (Dermanyssoidea) is morphologically and ecologically the most diverse group of Mesostigmata mites. Although molecular genetic data are widely used in taxonomic identification and phylogenetic analysis, most classifications in Mesostigmata mites are based solely on morphological characteristics. In the present study, eight species of mites from the Laelapidae (Dermanyssoidea) family collected from different species of small rodents in Lithuania, Norway, Slovakia, and the Czech Republic were molecularly characterized using the nuclear (28S ribosomal RNA) and mitochondrial (cytochrome oxidase subunit I gene) markers. Obtained molecular data from 113 specimens of mites were used to discriminate between species and investigate the phylogenetic relationships and genetic diversity among Laelapidae mites from six genera. This study provides new molecular data on Laelaps agilis, Laelaps hilaris, Laelaps jettmari, Haemogamasus nidi, Eulaelaps stabularis, Hyperlaelaps microti, Myonyssus gigas, and Hirstionyssus sp. mites collected from different rodent hosts and geographical regions in Europe.
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Chaudhary, Anshu. « Molecular Identification of Seven Myxobolus Species (Myxosporea : Myxobolidae) in Cyprinids from India ». International Journal of Zoology and Animal Biology 7, no 1 (2024) : 1–18. http://dx.doi.org/10.23880/izab-16000550.

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This communication aims to detect the myxozoan infection in some cyprinid fishes that were mostly cultured and commonly used for food in the Meerut region, Uttar Pradesh, India. Myxozoan were identified morphologically and for molecular analysis we have used previously established PCR assays for genetic marker ssrDNA then phylogenetic analysis was performed. Total seven species of Myxobolus were identified i.e., Myxobolus bhadrensis, Myxobolus kalavatiae, Myxobolus haldari from Labeo rohita, Myxobolus calbasui, Myxobolus catlae, from Cirrihinus reba and Cirrihinus mrigala, Myxobolus hosadurgensis from Cirrihinus mrigala and Myxobolus saranae from Labeo bata. An integrated comparative analysis of the ssrDNA gene supported the identification of the collected species and represents the phylogenetic position of all species. This work addresses the problems in the taxonomy of myxozoans in India, where molecular studies are less focused. My species parasitized similar hosts for which genetic data is the only way to make a clear distinction between species and their validity.
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Makut, Makwin Danladi, Jibril Egwu Owuna et Salmat Musah Salisu. « Molecular Identification of Lactic Acid Bacteria Isolated from Fermented Rice ». AROC in Agriculture 2, no 1 (11 décembre 2022) : 06–11. http://dx.doi.org/10.53858/arocagr02010611.

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Background: Fermented rice is known to possess probiotic capability. Probiotics are live microorganisms that confers consumer with enormous health benefits. This research was determined on isolation and molecularly identifies beneficial lactic acid bacteria from fermented rice water. Methods: Locally cultivated Osuemegbe Rice grains were steeped and fermented to isolate lactic acid bacteria strains. De Man Rogosa Sharpe (MRS) media was used for the isolation of lactic acid bacteria. The fermented rice water was serially diluted, plated and incubated at 37 °C for 48 hours under anaerobic conditions. Single colonies were subjected to biochemical analysis and gram-staining. Subsequently, 16s rRNA Identification of bacterial isolates was conducted. Results: The strains of LAB isolated were lactiplantibacillus plantarum CIP 103151and Limosilactobacillus fermentum CIP 102980 which are both beneficial and highly recommended as alternatives to antibiotics since their various mechanisms of growth inhibition against pathogenic bacteria have been extensively documented. Conclusion: The findings in this study confirmed rice to possess strains of probiotic Lactic acid bacteria (LAB) which can be exploited to achieving quality advancement in one health: integrated and unify approach aim at sustainably balance and optimize the health of people, animals, and ecosystem.
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Chacón-Monge, José Leonardo, Juan Ignacio Abarca-Odio et Kaylen González-Sánchez. « Evaluating the reliability of DNA Barcoding for Central American Pacific shallow water echinoderms identification : a molecular taxonomy and database accuracy analysis ». Revista de Biología Tropical 72, S1 (2 mars 2024) : e58997. http://dx.doi.org/10.15517/rev.biol.trop..v72is1.58997.

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Introduction: Molecular divergence thresholds have been proposed to distinguish recently separated evolutive units, often displaying more accurate putative species assignments in taxonomic research compared to traditional morphological approaches. This makes DNA barcoding an attractive identification tool for a variety of marine invertebrates, especially for cryptic species complexes. Although GenBank and the Barcode of Life Data System (BOLD) are the major sequence repositories worldwide, very few have tested their performance in the identification of echinoderm sequences. Objective: We use COI echinoderm sequences from local samples and the molecular identification platforms from GenBank and BOLD, in order to test their accuracy and reliability in the DNA barcoding identification for Central American shallow water echinoderms, at genus and species level. Methods: We conducted sampling, tissue extraction, COI amplification, sequencing, and taxonomic identification for 475 specimens. The 348 obtained sequences were individually enquired with BLAST in GenBank as well as using the Identification System (IDS) in BOLD. Query sequences were classified depending on the best match result. McNemar’s chi-squared, Kruskal-Wallis’s and Mann-Whitney’s U tests were performed to prove differences between the results from both databases. Additionally, we recorded an updated list of species reported for the shallow waters of the Central American Pacific. Results: We found 324 echinoderm species reported for Central American Pacific shallow waters. Only 118 and 110 were present in GenBank and BOLD databases respectively. We proposed 325 solved morphology-based identities and 21 provisional identifications in 50 putative taxa. GenBank retrieved 348 molecular-based identifications in 58 species, including twelve provisional identifications in tree taxa. BOLD recovered 170 COI identifications in 23 species with one provisional identification. Nevertheless, 178 sequences retrieved unmatched terms (in 34 morphology-based taxa). Only 86 sequences (25 %) were retrieved as correct identifications and 128 (37 %) as identification errors in both platforms. We include 84 sequences for eleven species not represented in GenBank and 65 sequences for ten species in BOLD Echinoderm COI databases. The identification accuracy using BLAST (175 correct and 152 incorrect identifications) was greater than with IDS engine (110 correct and 218 identification errors), therefore GenBank outperforms BOLD (Kruskal-Wallis = 41.625, df = 1, p < 0.001). Conclusions: Additional echinoderm sample references are needed to improve the utility of the evaluated DNA barcoding identification tools. Identification discordances in both databases may obey specific parameters used in each search algorithm engine and the available sequences. We recommend the use of barcoding as a complementary identification source for Central American Pacific shallow water echinoderm species.
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Zhou, F., F. Kong, K. McPhie, M. Ratnamohan, G. L. Gilbert et D. E. Dwyer. « Molecular Identification and Analysis of Nonserotypeable Human Enteroviruses ». Journal of Clinical Microbiology 48, no 4 (17 février 2010) : 1276–82. http://dx.doi.org/10.1128/jcm.02384-09.

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de Pancorbo, M. M., A. Castro, I. Fernández-Fernández, N. Cuevas, M. Castillo et M. Saloña. « Molecular identification of arthropods by cytochrome b analysis ». International Congress Series 1261 (avril 2004) : 398–400. http://dx.doi.org/10.1016/j.ics.2003.12.084.

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Wang, Rong-Fu, Wei-Wen Cao et Carl E. Cerniglia. « Phylogenetic analysis and identification ofShigellaspp. by molecular probes ». Molecular and Cellular Probes 11, no 6 (décembre 1997) : 427–32. http://dx.doi.org/10.1006/mcpr.1997.0136.

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Dandapat, Sukumar. « MOLECULAR IDENTIFICATION AND ANTIBACTERIAL ACTIVITY OF MACROFUNGUS Trametes sanguineus (L.) ». Biotechnologia Acta 16, no 4 (31 août 2023) : 50–59. http://dx.doi.org/10.15407/biotech16.04.050.

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Aim. The molecular identification of Pycnoporus sanguineus, a previously morphologically mushroom, was done to see the antibacterial activity against pathogenic bacteria Staphylococcus aureus and Salmonella typhi. Methods. A fragment of the D2 region of 28S rDNA was amplified by PCR, sequenced, and BLAST was performed using the consensus sequence. The maximum identity score was used to build a phylogenetic tree. Agar well diffusion was used to study the antibacterial activity. Results. Sequencing of a 700 base pair PCR amplicon was carried and a 616 base pair of D2 region of large subunit gene was generated. The 100 blast hits on the D2 region of LSU gene showed similarity to Trametes sanguineus voucher PRSC95 (GenBank Accession Number: JN164795.1) based on nucleotide homology and phylogenetic analysis. Antibacterial screening revealed that the crude extract had higher activity on Staphylococcus aureus, with a 3mm to 13mm zone of inhibition and a 100µg minimum inhibitory concentration, compared to Salmonella typhi. Salmonella typhi had a 5 mm to 15 mm zone of inhibition and a 200 µg minimum inhibitory concentration. Conclusion. According to the obtained result, the morphologically identified mushroom Pycnoporus sanguies can be referred to as Trametes sanguine, and it can be used for producinig antibacterial agents.
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Dolanská, L., et V. Čurn. « Identification of white clover (Trifolium repens L.) cultivars using molecular markers ». Plant, Soil and Environment 50, No. 3 (6 décembre 2011) : 95–100. http://dx.doi.org/10.17221/4013-pse.

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The different molecular analysis for specification of white clover (Trifolium repens L.) populations was studied between 2002 and 2003. RAPD, SSR (microsatellites), rDNA and PCR-RFLP markers were used for this study. The high genetic variation was detected among the cultivars but also within the cultivars by RAPD markers. For this reason RAPD markers were not found as a suitable marker system for determination of white clover cultivars. The distribution of low genetic variation of rDNA and PCR-RFLP markers was not able to differentiate cultivars. SSR and rDNA markers did not show variability of patterns within one cultivar. The different sizes of PCR fragments were obtained after amplification with microsatellite primers. SSR markers are therefore suggested as the suitable markers for the identification of different T. repens cultivars.
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Egger, Keith N. « Molecular analysis of ectomycorrhizal fungal communities ». Canadian Journal of Botany 73, S1 (31 décembre 1995) : 1415–22. http://dx.doi.org/10.1139/b95-405.

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Despite advances in mycorrhizal identification, the goal of elucidating the structure and development of mycorrhizal communities remains elusive. Fruit body production can be sporadic, morphological typing of mycorrhizae is subject to variation with environmental conditions or host, and cultural studies are labor intensive and miss fungi that cannot be isolated. Molecular techniques for identification of fungal symbionts can supplement these techniques and offer an approach that is rapid, is independent of environmental variation, and can be applied directly to large numbers of samples. Molecular approaches to mycorrhizal community analysis attempt to distinguish taxonomic groups so they can be monitored and their interactions studied. Initial characterization of community structure involves enzymatic amplification of DNA directly from mycorrhizal roots using fungus-specific primers, followed by restriction endonuclease digestion to produce taxon-specific restriction fragment patterns. Comparison of these patterns with those obtained from fungal fruit bodies or reference cultures facilitates identification of fungal symbionts. Phylogenetic relationships of fungi that cannot be matched to reference isolates can be inferred by sequencing enzymatically amplified DNA. Future directions that will result from molecular approaches include development of sampling strategies, resolution of species complexes, field observations of host specificity, elucidation of the dynamics of replacement processes (succession), and determination of the role of dispersal in community development. As additional techniques are developed for population analysis, resolution of questions related to genetic structure, variation, and gene flow will become feasible. Key words: molecular ecology, fungal community structure, PCR.
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Chaffanet, Max, L. Addou-Klouche, J. Adélaïde, S. Cornen, I. Bekhouche, P. Finetti, A. Guille et al. « Integrated Genomic Analysis of Breast Cancers ». Balkan Journal of Medical Genetics 15, Supplement (1 décembre 2012) : 71–74. http://dx.doi.org/10.2478/v10034-012-0023-x.

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ABSTRACT Breast cancer is the most frequent and the most deadly cancer in women in Western countries. Different classifications of disease (anatomoclinical, pathological, prognostic, genetic) are used for guiding the management of patients. Unfortunately, they fail to reflect the whole clinical heterogeneity of the disease. Consequently, molecularly distinct diseases are grouped in similar clinical classes, likely explaining the different clinical outcome between patients in a given class, and the fact that selection of the most appropriate diagnostic or therapeutic strategy for each patient is not done accurately. Today, treatment is efficient in only 70.0- 75.0% of cases overall. Our repertoire of efficient drugs is limited but is being expanded with the discovery of new molecular targets for new drugs, based on the identification of candidate oncogenes and tumor suppressor genes (TSG) functionally relevant in disease. Development of new drugs makes therapeutical decisions even more demanding of reliable classifiers and prognostic/predictive tests. Breast cancer is a complex, heterogeneous disease at the molecular level. The combinatorial molecular origin and the heterogeneity of malignant cells, and the variability of the host background, create distinct subgroups of tumors endowed with different phenotypic features such as response to therapy and clinical outcome. Cellular and molecular analyses can identify new classes biologically and clinically relevant, as well as provide new clinically relevant markers and targets. The various stages of mammary tumorigenesis are not clearly defined and the genetic and epigenetic events critical to the development and aggressiveness of breast cancer are not precisely known. Because the phenotype of tumors is dependent on many genes, a large-scale and integrated molecular characterization of the genetic and epigenetic alterations and gene expression deregulation should allow the identification of new molecular classes clinically relevant, as well as among the altered genes and/or pathways, the identification of more accurate molecular diagnostic, prognostic/predictive factors, and for some of them, after functional validation, the identification of new therapeutic targets.
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Donnik, Irina, Irina Donnik, Ramil Vafin, Ramil Vafin, Aram Galstyan, Aram Galstyan, Anna Krivonogova et al. « Genetic identification of bovine leukaemia virus ». Foods and Raw Materials 6, no 2 (20 décembre 2018) : 314–24. http://dx.doi.org/10.21603/2308-4057-2018-2-314-324.

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Molecular genetic research methods make it possible to evaluate the genetic diversity of bovine leukemia virus (BLV) and are the most informative approaches to its genetic identification. Molecular genetic research methods work well for the phylogenetic analysis of sequenced nucleotide DNA sequences of the provirus, as well as for the polymerase chain reaction-restriction fragment length polymorphism analysis (PCR-RFLP) according to the phylogenetic classification of the pathogen. The purpose of the research was to study the scientific and methodological approaches to the genetic identification of bovine leukemia virus, integrated into the molecular monitoring of infection of cattle with BLV genotypes. The authors used PCR-RFLP-genotyping and comparative phylogenetic analysis of aligned nucleotide sequences of the env gene fragment of the BLV provirus isolates to detect the genotypic affiliation of the cattle from twenty-one livestock farms of the Republic of Tatarstan. As a result, isolates of four out of ten BLV genotypes were found in the Tatarstani cattle, namely genotypes 1, 4, 7, and 8. The research involved a comparative analysis of 505 nucleotide sequences of a fragment of the BLV env gene, including those deposited in GenBank NCBI. The analysis confirms the inconsistency of several earlier PCR-RFLP typing strategies with the current approach in assessing the genotypic diversity by phylogenetic analysis. The improved strategy of PCR-RFLP genotyping of BLV corresponds with its modern phylogenetic classification. The strategy makes it possible to identify all the known genotypes of the viral pathogen. Its validity has been proved by in silico modelling of restrictogrammes and a phylogenetic analysis of the env gene fragment of 57 reference isolates of ten BLV genotypes that generate 57 genotype-associated combinations of diagnostically significant PCR-RFLP profiles.
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Kano, R., T. Okayama, M. Hamamoto, T. Nagata, K. Ohno, H. Tsujimoto, H. Nakayama, K. Doi, K. Fujiwara et A. Hasegawa. « Isolation ofFusarium solanifrom a dog : identification by molecular analysis ». Medical Mycology 40, no 4 (janvier 2002) : 435–37. http://dx.doi.org/10.1080/mmy.40.4.435.437.

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RS, KHANAPURKAR, PAUL NILESH, DESAI DM, LINGOJWAR DP, RAUT MR et GANGAWANE AK. « MOLECULAR IDENTIFICATION OF Tinospora sinensis BY ITS2 SEQUENCE ANALYSIS ». International Journal of Molecular Biology 3, no 2 (30 mai 2012) : 55–57. http://dx.doi.org/10.9735/0976-0482.3.2.55-57.

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Tong, Yuru, Chao Jiang, Yuan Yuan, Yan Jin, Zhan-hu Cui et Luqi Huang. « Molecular identification of antelope horn by melting curve analysis ». Mitochondrial DNA Part A 27, no 6 (26 décembre 2014) : 3945–51. http://dx.doi.org/10.3109/19401736.2014.989500.

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Jehle, Johannes A., Martin Lange, Hualin Wang, Zhihong Hu, Yongjie Wang et Rüdiger Hauschild. « Molecular identification and phylogenetic analysis of baculoviruses from Lepidoptera ». Virology 346, no 1 (mars 2006) : 180–93. http://dx.doi.org/10.1016/j.virol.2005.10.032.

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Weng, F. Y., C. S. Chiou, P. H. P. Lin et S. S. Yang. « Application ofrecAandrpoBsequence analysis on phylogeny and molecular identification ofGeobacillusspecies ». Journal of Applied Microbiology 107, no 2 (août 2009) : 452–64. http://dx.doi.org/10.1111/j.1365-2672.2009.04235.x.

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Farmer, Pierre, Herve Bonnefoi, Veronique Becette, Michele Tubiana-Hulin, Pierre Fumoleau, Denis Larsimont, Gaetan MacGrogan et al. « Identification of molecular apocrine breast tumours by microarray analysis ». Oncogene 24, no 29 (9 mai 2005) : 4660–71. http://dx.doi.org/10.1038/sj.onc.1208561.

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Zhang, Zhilong, Renyong Jia, Yanyan Lu, Mingshu Wang, Dekang Zhu, Shun Chen, Zhongqiong Yin, Xiaoyue Chen et Anchun Cheng. « Identification, genotyping, and molecular evolution analysis of duck circovirus ». Gene 529, no 2 (octobre 2013) : 288–95. http://dx.doi.org/10.1016/j.gene.2013.07.028.

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Wang, Boris B. T., Loh-Chung Yu, Willow Peng, Rena E. Falk et John Williams. « Prenatal identification of i(YP) by molecular cytogenetic analysis ». Prenatal Diagnosis 15, no 12 (décembre 1995) : 1115–19. http://dx.doi.org/10.1002/pd.1970151206.

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刘, 若思. « Molecular Identification and Interception Analysis of Dysmicoccus lepelleyi (Betrem) ». International Journal of Ecology 12, no 03 (2023) : 247–52. http://dx.doi.org/10.12677/ije.2023.123030.

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Leclerc, Robert F., et Stephen G. Miller. « Identification and molecular analysis of storage proteins fromHeliothis virescens ». Archives of Insect Biochemistry and Physiology 14, no 3 (1990) : 131–50. http://dx.doi.org/10.1002/arch.940140303.

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Alsiddig Ahmed, Asaad. « Molecular Genetic Identification of Some Sweet Sorghum - Sorghum bicolor L. (Ankolib) Accessions - Sudan ». International Journal of Stem Cells and Medicine 2, no 1 (31 janvier 2023) : 01–04. http://dx.doi.org/10.58489/2836-5038/007.

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This study is an attempt to identify some Sudanese Sweet Sorghum (Ankolib) [Sorghum bicolor (L.) Moench.] accessions using two types of DNA-based markers: RAPD and SSR. Seven (Ankolib) accessions were assayed, namely: Black Ankolib, Black White Ankolib, Dark Red Ankolib, Red Yellow Ankolib, White Ankolib, White Black Ankolib and Bengaga. All of the accessions were uniquely identified and fingerprinted. The levels of polymorphism among the accessions as revealed by (22) RAPD primers and (16) SSR primer pairs were (58%) and (76%) respectively, indicating that SSRs markers were highly polymorphic. The scored data of the two markers were analyzed using the Dice Coefficient to assess genetic relationships among the (7) (Ankolib) accessions. The results of the statistical analysis revealed that the accession Bengaga was distantly related to the other (6) accessions which all showed a close genetic similarity among them. UPGMA cluster analysis generated a dendrogram for each marker alone and for the combined data of the two markers. It was observed that in all of the dendrogram the accession Bengaga was found in a unique cluster thus indicating its uniqueness, since it is the only accession that has seeds that produce flour besides its juicy sweet stem.
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Lukac, Iva, Joanna Zarnecka, Edward J. Griffen, Alexander G. Dossetter, Stephen A. St-Gallay, Steven J. Enoch, Judith C. Madden et Andrew G. Leach. « Turbocharging Matched Molecular Pair Analysis : Optimizing the Identification and Analysis of Pairs ». Journal of Chemical Information and Modeling 57, no 10 (2 octobre 2017) : 2424–36. http://dx.doi.org/10.1021/acs.jcim.7b00335.

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Silva, Helane França, Elaine Martins da Costa, Alice Maria Gonçalves Santos, Ana Cláudia Tenório do Amaral, Rafael José Vilela de Oliveira, José Luiz Bezerra et Edna Dora Martins Newman Luz. « Molecular identification and phylogenetic analysis of Trichoderma isolates obtained from woody plants of the semi-arid of Northeast Brazil ». Nova Hedwigia 112, no 3-4 (27 mai 2021) : 485–500. http://dx.doi.org/10.1127/nova_hedwigia/2021/0622.

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Maan H. Salih. « Molecular Markers for Human Sex Determination in Forensic Genetics Analysis ». International Journal for Research in Applied Sciences and Biotechnology 8, no 6 (20 novembre 2021) : 25–30. http://dx.doi.org/10.31033/ijrasb.8.6.6.

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Sex determination is indispensable in forensic anthropology, sexual disorder, and also as part of large-scale genetic population studies. The purpose of this investigation is to determine the human sex from whole blood using multiplex PCR analysis. Blood samples from 75 male and 70 female healthy volunteers were taken from Tikrit city, Iraq. Our study identified a reliable set of three primer locus, namely SRY, ALT1 (internal control) and amelogenin locus. The SRY primer on the Y chromosome showed a 254 bp of PCR product, with 100% accuracy for human male identification. Thus, the pair of SRY primers was considered a strong genetic marker for human sex identification. Amelogenin regions in the Y chromosome showed a true positive band (236 bp) with 100% accuracy on sex identification. Amelogenin regions in X chromosome also showed positive bands (330 bp) in female samples and positive band in male samples except for two samples showed a negative band (null bands). The most obvious finding from this study is that multiplex PCR of ALT1 and SRY is consider as a reliable genetic marker for human sex identification. The research has also shown that amelogenin is good genetic marker for human sex identification.
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Lion, Thomas, Karin Ebner, Susanne Matthes-Martin et Franz Watzinger. « Molecular Serotype Analysis of Adenoviruses : Clinical Implications. » Blood 104, no 11 (16 novembre 2004) : 2237. http://dx.doi.org/10.1182/blood.v104.11.2237.2237.

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Abstract Adenovirus (AdV) infections are a major cause of morbidity and mortality in allogeneic stem cell transplant (SCT) recipients. Human adenoviruses represent a large family, currently including 51 serotypes, which are divided into 6 species (A-F). We have recently demonstrated by a species-specific RQ-PCR approach covering the entire spectrum of human adenoviruses that molecular detection of AdV in peripheral blood precedes the onset of life-threatening virus disease, and provides a basis for early preemptive treatment (Lion et al., Blood102(3):1114–20, 2003). An association of AdV species with clinical manifestation and response to antiviral therapy has been reported, but little is known about the clinical role of individual AdV serotypes. In immunocompromised patients, the use of serological testing for identification of adenovirus serotypes is limited due to the impaired immune response. We have therefore determined the nucleotide sequence of the complete AdV hexon gene in all 51 human serotypes, and identified regions permitting rapid serotyping at the molecular level. Serotypes belonging to the species A,B, C, E, and F, can be determined by fragment length analysis of a single PCR product, respectively. Serotype identification within the largest AdV species D requires sequencing of a single 300bp PCR amplicon. In view of the great predominance of species C in our region, we have also established real-time PCR tests permitting identification of its four serotypes. Analysis of all AdV C positive cases within more than 6.000 clinical specimens investigated at our center over the past years revealed the highest prevalence for serotype 2 (57%), followed by the serotypes 1 (39%) and 5 (4%). In some instances, two different AdV C serotypes were present simultaneously. We have demonstrated that the identification of specific virus strains within individual AdV serotypes, which may be required for investigation of possible transmission of infections within the hospital, can be achieved by sequencing of PCR products derived from an appropriate AdV target region within the hexon gene. The possibility of rapid molecular serotype and strain analysis provides a basis for studies on adenovirus epidemiology, and may in future have implications for the selection of the most appropriate antiviral treatment.
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Suryani, Suryani, Tuty Taslim, Ija Darmana, Rahmawati Rahmawati, Nova Arikhman, B. A. Martinus, Chrisnawati Chrisnawati et Syamsuwirman Syamsuwirman. « MOLECULAR IDENTIFICATION AND ANTIBACTERIAL ANALYSIS OF LACTIC ACID BACTERIA FROM COCONUT WATER (COCOS NUCIFERA) AS A PROBIOTIC CANDIDATE ». RASAYAN Journal of Chemistry 16, no 02 (2023) : 1005–11. http://dx.doi.org/10.31788/rjc.2023.1628239.

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Coconut water has been traditionally used as a fever medicine by the Minangkabau people in Indonesia since ancient times, but the chemical or probiotic components have not been widely studied. Therefore, this study aims to isolate and molecularly identify the probiotics found in coconut water, as well as to analyze their antimicrobial and antioxidant abilities. The Lactic acid bacteria (LAB) isolation was conducted by applying MRSA + CaCO3 with a concentration of 0.5%, and the molecular identification used the PCR (Polymerase Chain Reaction) method. Meanwhile, morphological and physiological identifications were also carried out with biochemical tests. The agar diffusion method was used to analyantimicrobialsial by measuring the diameter of the inhibition zone. The results showed that 97 isolates were lactic acid bacteria, while morphological, physiological, and biochemical tests showed Lactobacillus paracasei, Lactobacillus plantarum, Pediococcus sp 1, Pediococcus sp 2, Pediococcus sp 3, and Pediococcus sp 4, as well as two species of fungi such as Candida sp and Rizhopus. The molecular identification showed that Enterococcus faecalis strain 2358 can inhibit the growth of Staphylococcus aureus. Therefore, coconut water can be traditionally used to treat fever medicine because it contains probiotics and antimicrobial properties
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Patel, Isha R., Jayanthi Gangiredla, David W. Lacher, Mark K. Mammel, Scott A. Jackson, Keith A. Lampel et Christopher A. Elkins. « FDA Escherichia coli Identification (FDA-ECID) Microarray : a Pangenome Molecular Toolbox for Serotyping, Virulence Profiling, Molecular Epidemiology, and Phylogeny ». Applied and Environmental Microbiology 82, no 11 (1 avril 2016) : 3384–94. http://dx.doi.org/10.1128/aem.04077-15.

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ABSTRACTMostEscherichia colistrains are nonpathogenic. However, for clinical diagnosis and food safety analysis, current identification methods for pathogenicE. colieither are time-consuming and/or provide limited information. Here, we utilized a custom DNA microarray with informative genetic features extracted from 368 sequence sets for rapid and high-throughput pathogen identification. The FDAEscherichia coliIdentification (FDA-ECID) platform contains three sets of molecularly informative features that together stratify strain identification and relatedness. First, 53 known flagellin alleles, 103 alleles ofwzxandwzy, and 5 alleles ofwzmprovide molecular serotyping utility. Second, 41,932 probe sets representing the pan-genome ofE. coliprovide strain-level gene content information. Third, approximately 125,000 single nucleotide polymorphisms (SNPs) of available whole-genome sequences (WGS) were distilled to 9,984 SNPs capable of recapitulating theE. coliphylogeny. We analyzed 103 diverseE. colistrains with available WGS data, including those associated with past foodborne illnesses, to determine robustness and accuracy. The array was able to accurately identify the molecular O and H serotypes, potentially correcting serological failures and providing better resolution for H-nontypeable/nonmotile phenotypes. In addition, molecular risk assessment was possible with key virulence marker identifications. Epidemiologically, each strain had a unique comparative genomic fingerprint that was extended to an additional 507 food and clinical isolates. Finally, a 99.7% phylogenetic concordance was established between microarray analysis and WGS using SNP-level data for advanced genome typing. Our study demonstrates FDA-ECID as a powerful tool for epidemiology and molecular risk assessment with the capacity to profile the global landscape and diversity ofE. coli.IMPORTANCEThis study describes a robust, state-of-the-art platform developed from available whole-genome sequences ofE. coliandShigellaspp. by distilling useful signatures for epidemiology and molecular risk assessment into one assay. The FDA-ECID microarray contains features that enable comprehensive molecular serotyping and virulence profiling along with genome-scale genotyping and SNP analysis. Hence, it is a molecular toolbox that stratifies strain identification and pathogenic potential in the contexts of epidemiology and phylogeny. We applied this tool to strains from food, environmental, and clinical sources, resulting in significantly greater phylogenetic and strain-specific resolution than previously reported for available typing methods.
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Sontigun, Narin, Kabkaew Sukontason, Jens Amendt, Barbara Zajac, Richard Zehner, Kom Sukontason, Theeraphap Chareonviriyaphap et Anchalee Wannasan. « Molecular Analysis of Forensically Important Blow Flies in Thailand ». Insects 9, no 4 (8 novembre 2018) : 159. http://dx.doi.org/10.3390/insects9040159.

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Blow flies are the first insect group to colonize on a dead body and thus correct species identification is a crucial step in forensic investigations for estimating the minimum postmortem interval, as developmental times are species-specific. Due to the difficulty of traditional morphology-based identification such as the morphological similarity of closely related species and uncovered taxonomic keys for all developmental stages, DNA-based identification has been increasing in interest, especially in high biodiversity areas such as Thailand. In this study, the effectiveness of long mitochondrial cytochrome c oxidase subunit I and II (COI and COII) sequences (1247 and 635 bp, respectively) in identifying 16 species of forensically relevant blow flies in Thailand (Chrysomya bezziana, Chrysomya chani, Chrysomya megacephala, Chrysomya nigripes, Chrysomya pinguis, Chrysomya rufifacies, Chrysomya thanomthini, Chrysomya villeneuvi, Lucilia cuprina, Lucilia papuensis, Lucilia porphyrina, Lucilia sinensis, Hemipyrellia ligurriens, Hemipyrellia pulchra, Hypopygiopsis infumata, and Hypopygiopsis tumrasvini) was assessed using distance-based (Kimura two-parameter distances based on Best Match, Best Close Match, and All Species Barcodes criteria) and tree-based (grouping taxa by sequence similarity in the neighbor-joining tree) methods. Analyses of the obtained sequence data demonstrated that COI and COII genes were effective markers for accurate species identification of the Thai blow flies. This study has not only demonstrated the genetic diversity of Thai blow flies, but also provided a reliable DNA reference database for further use in forensic entomology within the country and other regions where these species exist.
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Jurankova, J., D. Jirsova, B. Pafco et P. Forejtek. « The molecular and morphometric identification of Dictyocaulus capreolus in clinically affected roe deer (Capreolus capreolus L.) ». Veterinární Medicína 64, No. 9 (27 septembre 2019) : 386–91. http://dx.doi.org/10.17221/9/2019-vetmed.

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The poor state of health and increased mortality rate of young roe deer, as reported by South Moravian hunters, caused by the increasing numbers of adult nematodes in the lungs of roe deer prompted us to identify the parasites using a combination of morphological measurements and a phylogenetic SSU rRNA analysis. The study was conducted in a 294 ha game reserve in South Moravia, Czech Republic. Molecular and morphometric techniques were used to identify adult nematodes collected from the respiratory tracts of nine 4–5 months old roe deer in poor health (low body weight of 3–4 kg, poor haircoat quality, and, in some cases, symptoms of diarrhoea). The morphological identification was based on a combination of adult worm characteristics corresponding to Dictyocaulus capreolus. A small subunit rRNA (SSU) partial sequence analysis showed the highest identity scores (99%) corresponding to the sequences of D. capreolus from a roe deer (GenBank: AY168859) from Sweden and the outcomes of the phylogenetic analyses resulted in a tree with a high branch support for two groups, with our sequences forming a well-supported clade with D. capreolus and Dictyocaulus sp. ex Capreolus capreolus (FJ589016) and Dictyocaulus sp. ex Rupicapra rupicapra (FJ589019) sequences from Spain. The examined roe deer have shown symptoms of diarrhoea, anorexia, and respiratory tract inflammation indicating that there might be a connection to the clinical importance of the Dictyocaulus infection.
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Asran, Eslam, Samy Khalil et Abd Hegazy. « Identification and Molecular Analysis of Pasteurella Multocida Isolated from Rabbits ». Alexandria Journal of Veterinary Sciences 48, no 1 (2016) : 34. http://dx.doi.org/10.5455/ajvs.187808.

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Yang, Guokun, Chaobin Qin, Bin Wang, Jirong Jia, Xi Yuan, Caiyun Sun et Wensheng Li. « Molecular identification and functional analysis of Ctrp9 in Epinephelus coioides ». Journal of Molecular Endocrinology 58, no 4 (mai 2017) : 179–91. http://dx.doi.org/10.1530/jme-16-0171.

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CTRP9 is a member of the C1q/TNF-related protein (CTRP) superfamily and has been studied in mammals, whereas the comparative studies of CTRP9 in non-mammalian species are still absent. In this study, ctrp9 was isolated and characterized from the orange-spotted grouper (Epinephelus coioides). The full-length cDNA of ctrp9 was 1378 bp in size with an ORF (open reading frame) of 1020 bp that encodes a 339 amino acid pre–pro hormone. The mRNA expression of ctrp9 showed a rather high level in the kidney and brain, but a low level in other tissues. Furthermore, the mRNA expression of ctrp9 decreased significantly in the liver after fasting for 7 days and restored to the normal levels after refeeding. In contrast, the ctrp9 mRNA level increased in the hypothalamus after fasting. The recombinant gCtrp9 (globular Ctrp9) was prepared using the Pichia pastoris expression system and was verified by Western blot as well as mass spectrometry assays. In the primary hepatocytes culture, the recombinant gCtrp9 could inhibit the glucose production after 12-h treatment. After i.p. (intraperitoneal) injection with recombinant gCtrp9, in hypothalamus, mRNA expression levels of npy and orexin (orexigenic factors) decreased, whereas the expression levels of crh and pomc (anorexigenic factors) increased. Moreover, i.p. injection with the recombinant gCtrp9 could reduce the serum concentrations of glucose, TG and low-density lipoprotein cholesterol but increase the content of high-density lipoprotein cholesterol. Our studies for the first time unveil the structure of Ctrp9 and its potential role as a regulatory factor of metabolism and food intake in teleost.
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Barbosa, Lidiane Nunes, Rui Seabra Ferreira Jr, Priscila Luiza Mello, Hans Garcia Garces, Jéssica Luana Chechi, Tarsila Frachin, Luciana Curtolo De Barros et al. « Molecular identification and phylogenetic analysis ofBothrops insularisbacterial and fungal microbiota ». Journal of Toxicology and Environmental Health, Part A 81, no 6 (10 janvier 2018) : 142–53. http://dx.doi.org/10.1080/15287394.2017.1395581.

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Ramasamy, Rajeswari, Subha Ashley Thanga Subramanian, R. Abinaya Rajagopal, Karthikadevi Muthusamy, Jesteena Johney et R. Ragunathan. « Molecular Identification and Analysis of Multi-Drug Resistant Klebsiella pneumonia ». International Journal of Applied Sciences and Biotechnology 6, no 3 (1 octobre 2018) : 279–84. http://dx.doi.org/10.3126/ijasbt.v6i3.21185.

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Multidrug resistant Klebsiella pneumoniae was resistant to various antibiotics which are commonly used to treat against the bacterial infections, and is now emerged as a great risk. Antibiotic susceptibility tests were performed to determine the scope of drug resistance of the bacteria. Further studies regarding the responsible genetic material were performed by Polymerase Chain Reaction and RFLP techniques. The remedial measures for treating these bacteria were studied with the help of metabolites obtained from various strains.Int. J. Appl. Sci. Biotechnol. Vol 6(3): 279-284
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Bereswill, Stefan, Oliver Neuner, Sonja Strobel et Manfred Kist. « Identification and molecular analysis of superoxide dismutase isoforms inHelicobacter pylori ». FEMS Microbiology Letters 183, no 2 (février 2000) : 241–45. http://dx.doi.org/10.1111/j.1574-6968.2000.tb08965.x.

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Ding, Yanfei, Aili Qu, Shumin Gong, Shanxia Huang, Bing Lv et Cheng Zhu. « Molecular Identification and Analysis of Cd-Responsive MicroRNAs in Rice ». Journal of Agricultural and Food Chemistry 61, no 47 (18 novembre 2013) : 11668–75. http://dx.doi.org/10.1021/jf401359q.

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Bossi, Patrícia Vieira, Erika Aparecida Consoli, Juliana Magrinelli Osório Rosa, Luiza Bossi Leite, Romário Cerqueira Leite et Claudio Marcelo Gonçalves de Oliveira. « Molecular identification and phylogenetic analysis of Metarhabditis blumi (Nematoda : Rhabditida) ». Veterinary Parasitology 214, no 1-2 (novembre 2015) : 184–86. http://dx.doi.org/10.1016/j.vetpar.2015.06.014.

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Alasaad, Samer, Antonio Sánchez, Juan Alberto Marchal, Ana Píriz, José A. Garrido-García, Francisco Carro, Ismael Romero et Ramón C. Soriguer. « Efficient identification of Microtus cabrerae excrements using noninvasive molecular analysis ». Conservation Genetics Resources 3, no 1 (18 août 2010) : 127–29. http://dx.doi.org/10.1007/s12686-010-9306-2.

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Dupuy, Laurent M., et Robert E. Rudd. « Surface identification, meshing and analysis during large molecular dynamics simulations ». Modelling and Simulation in Materials Science and Engineering 14, no 2 (15 février 2006) : 229–51. http://dx.doi.org/10.1088/0965-0393/14/2/008.

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MacCabe, A. P., Johannes P. T. W. van den Hombergh, Joan Tilburn, Herbert N. Arst Jr. et J. Visser. « Identification, cloning and analysis of the ». MGG Molecular & ; General Genetics 250, no 3 (1996) : 367. http://dx.doi.org/10.1007/s004380050087.

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Oliveira de Sales, Romário, Juliana Rosa Carrijo Mauad, Claucia Aparecida Honorato, Kesia Esther Da Silva, Jaqueline Verconti, Peceu Magyve Ragagnin, Sibele Borsuk, Mauricio Laterça Martins et Simone Simionatto. « Histopathology and molecular identification of Henneguya pseudoplatystoma ». Latin American Journal of Aquatic Research 48, no 2 (6 mai 2020) : 207–13. http://dx.doi.org/10.3856/vol48-issue2-fulltext-2345.

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The present study proposes to characterize the parasites isolated during the initial phase of production in fish farms located in Mato Grosso do Sul in the central-western region of Brazil, using histopathology analysis and molecular techniques. A total of 340 hybrid surubim fish (Pseudoplatystoma reticulatum × P. corruscans) from four farms were examined during the co-feeding phase. Histopathology analysis showed that 10.9% (n = 37) of the fish were infected with parasites. Branchitis, lifting epithelium, hypertrophy of epithelial cells, lamellar fusion, aneurisms and infection in the bone tissue of the gill filament was observed. The parasite species was determined by amplification of the 18S rRNA gene followed by sequencing. The phylogenetic analysis of nucleotide sequences indicates a close relationship (99.6%) with Henneguya pseudoplatystoma reported to be infecting the hybrid Pseudoplatystoma. This study demonstrates the occurrence of H. pseudoplatystoma in hybrid surubim (P. reticulatum × P. corruscans) during the co-feeding phase in fish farms in Mato Grosso do Sul. Also, molecular techniques provide a faster and sensitive method to identify fish parasites, and may assist in the development of new management techniques aimed at improving the sanitary conditions contributing to the reduction of mortality rates in these animals.
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Kelsey, Gavin, et Wolf Reik. « Analysis and Identification of Imprinted Genes ». Methods 14, no 2 (février 1998) : 211–34. http://dx.doi.org/10.1006/meth.1997.0579.

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Gustavo A, Bich, Pedrozo Tania T, Villalba Laura L, Zapata Pedro D et Castrillo María L. « The mycoparasitic fungus clonostachys pityrodes : phylogenetic analysis as a tool for molecular identification ». Journal of Bacteriology & ; Mycology : Open Access 9, no 3 (2022) : 139–41. http://dx.doi.org/10.15406/jbmoa.2021.09.00311.

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Biological control is a promising and sustainable strategy to reduce damage caused by agricultural pests and the use of chemical fungicides. Fungal strains of the genus Clonostachys are studied as biocontrol agent of fungi and nematodes. However, the presence of this fungus in the soils of Misiones remains unexplored. Traditional fungal identification is generally carried out by morphological characterization in Petri dishes, and by observing their reproductive structures under the microscope. In general, with this methodology it is possible to identify to the genus level, however determining up to the species level is usually very complicated in some genera and many times ambiguities are achieved. In this context, molecular data emerges as an important tool to complement morphological information and thus achieve a correct fungal identification. The objective of this work was to molecularly identify with ITS markers a strain of the mycoparasitic fungus Clonostachys HEP30. The nucleic acids were isolated for molecular corroboration. From the extracted genetic material, the ITS1-5,8S-ITS2 region was amplified and sequenced. Once the region of interest was obtained, the information obtained was compared with that existing in the databases, using the Blast (Basic Local Alignment Search Tool) of the NCBI (National Center for Biotechnology Information) and the fungal barcoding database and then phylogenetic analysis was done. The molecular identification and phylogenetic analysis allowed us to classify the fungal isolate Clonotachys HEP 30 with high percentage of identity as a member of Clonostachys pityrodes species.
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Gemmellaro, M. Denise, George C. Hamilton et Jessica L. Ware. « Review of Molecular Identification Techniques for Forensically Important Diptera ». Journal of Medical Entomology 56, no 4 (7 juin 2019) : 887–902. http://dx.doi.org/10.1093/jme/tjz040.

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Abstract The medico-legal section of forensic entomology focuses on the analysis of insects associated with a corpse. Such insects are identified, and their life history characteristics are evaluated to provide information related to the corpse, such as postmortem interval and time of colonization. Forensically important insects are commonly identified using dichotomous keys, which rely on morphological characteristics. Morphological identifications can pose a challenge as local keys are not always available and can be difficult to use, especially when identifying juvenile stages. If a specimen is damaged, certain keys cannot be used for identification. In contrast, molecular identification can be a better instrument to identify forensically important insects, regardless of life stage or specimen completeness. Despite more than 20 yr since the first use of molecular data for the identification of forensic insects, there is little overlap in gene selection or phylogenetic methodology among studies, and this inconsistency reduces efficiency. Several methods such as genetic distance, reciprocal monophyly, or character-based methods have been implemented in forensic identification studies. It can be difficult to compare the results of studies that employ these different methods. Here we present a comprehensive review of the published results for the molecular identification of Diptera of forensic interest, with an emphasis on evaluating variation among studies in gene selection and phylogenetic methodology.
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