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Artykuły w czasopismach na temat „M. morganii 16s rdna analysis”

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Data publikacji: 3 czerwca 2025
Data aktualizacji: 31 lipca 2025

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1

KIM, SHIN-HEE, HAEJUNG AN, KATHARINE G. FIELD, et al. "Detection of Morganella morganii, a Prolific Histamine Former, by the Polymerase Chain Reaction Assay with 16S rDNA–Targeted Primers." Journal of Food Protection 66, no. 8 (2003): 1385–92. http://dx.doi.org/10.4315/0362-028x-66.8.1385.

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A polymerase chain reaction (PCR) assay for the rapid and sensitive detection of the most prolific histamine former, Morganella morganii, was developed.16S rDNA targeted PCR primers were designed, and the primer specificity and sensitivity of the PCR assay were evaluated. The 16S rDNA sequence (1,503 bp) for M. morganii showed 95% identity to those for enteric bacteria, i.e., Enterobacter spp., Klebsiella spp., Citrobacter spp., Hafnia alvei, Proteus spp., and Providencia spp. The unique primers for M. morganii were designed on the basis of the variable regions in the 16S rDNA sequence. The pr
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Emborg, Jette, Paw Dalgaard, and Peter Ahrens. "Morganella psychrotolerans sp. nov., a histamine-producing bacterium isolated from various seafoods." International Journal of Systematic and Evolutionary Microbiology 56, no. 10 (2006): 2473–79. http://dx.doi.org/10.1099/ijs.0.64357-0.

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Mesophilic Morganella morganii (n=6) and psychrotolerant M. morganii-like isolates from various seafoods (n=13), as well as clinical M. morganii isolates (n=3), were characterized by using a polyphasic approach including multi-locus sequencing. Based on the phylogenetic analysis, the 22 strains were divided into two distinct groups comprising mesophilic and psychrotolerant isolates, respectively. This classification was supported by DNA–DNA hybridization studies, whereby a psychrotolerant isolate (strain U2/3T) showed 41.0 and 17.8 % relatedness to the type strains of the mesophilic species Mo
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Roth, Andreas, Marga Fischer, Mohamed E. Hamid, Sabine Michalke, Wolfgang Ludwig, and Harald Mauch. "Differentiation of Phylogenetically Related Slowly Growing Mycobacteria Based on 16S-23S rRNA Gene Internal Transcribed Spacer Sequences." Journal of Clinical Microbiology 36, no. 1 (1998): 139–47. http://dx.doi.org/10.1128/jcm.36.1.139-147.1998.

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Interspecific polymorphisms of the 16S rRNA gene (rDNA) are widely used for species identification of mycobacteria. 16S rDNA sequences, however, do not vary greatly within a species, and they are either indistinguishable in some species, for example, in Mycobacterium kansasii and M. gastri, or highly similar, for example, in M. malmoense and M. szulgai. We determined 16S-23S rDNA internal transcribed spacer (ITS) sequences of 60 strains in the genus Mycobacterium representing 13 species (M. avium, M. conspicuum, M. gastri, M. genavense, M. kansasii,M. malmoense, M. marinum, M. shimoidei, M. si
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Clawson, Michael L., Jeffrey Gawronski, and David R. Benson. "Dominance ofFrankiastrains in stands ofAlnus incanasubsp.rugosaandMyrica pensylvanica." Canadian Journal of Botany 77, no. 9 (1999): 1203–7. http://dx.doi.org/10.1139/b99-070.

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To address issues of dominance and diversity of Frankia spp. strains, we sequenced 16S rRNA genes from root nodules and strains collected from Alnus incana subsp. rugosa (Du Roi) R.T. Clausen and Myrica pensylvanica Loisel. stands. Of 22 strains isolated previously from A. incana, 16 had the same partial rDNA sequence; the remaining 6 strains composed five additional groups. The groups identified by 16S rDNA analysis corresponded to phenotypic groups established previously by one- and two-dimensional polyacrylamide gel analysis, colony and hyphal morphology, and carbon source utilization patte
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YADAV, AKHILESH, ASHA LATA SINGH, GOVIND KUMAR RAI, and MAJOR SINGH. "Assessment of Molecular Diversity in Chickpea (Cicer arietinum L.) Rhizobia and Structural Analysis of 16S rDNA Sequences from Mesorhizobium ciceri." Polish Journal of Microbiology 62, no. 3 (2013): 253–62. http://dx.doi.org/10.33073/pjm-2013-033.

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Molecular diversity studies of 19 rhizobia isolates from chickpea were conducted using simple sequence repeats (SSR) and 16S rDNA-RFLP markers. Phenotypic characterization with special reference to salinity and pH tolerance was performed. These isolates were identified as different strains of Mesorhizobium, Rhizobium, Bradyrhizobium, and Agrobacterium. Twenty SSR loci of Mesorhizobium ciceri, distributed across the other rhizobial genome, clearly differentiated 19 rhizobial isolates. Analogous clustering supported the results of 16S rDNA sequence-based phylogeny. Analysis of the 16S rDNA seque
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Vetriani, Costantino, Holger W. Jannasch, Barbara J. MacGregor, David A. Stahl, and Anna-Louise Reysenbach. "Population Structure and Phylogenetic Characterization of Marine Benthic Archaea in Deep-Sea Sediments." Applied and Environmental Microbiology 65, no. 10 (1999): 4375–84. http://dx.doi.org/10.1128/aem.65.10.4375-4384.1999.

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ABSTRACT During the past few years Archaea have been recognized as a widespread and significant component of marine picoplankton assemblages and, more recently, the presence of novel archaeal phylogenetic lineages has been reported in coastal marine benthic environments. We investigated the relative abundance, vertical distribution, phylogenetic composition, and spatial variability ofArchaea in deep-sea sediments collected from several stations in the Atlantic Ocean. Quantitative oligonucleotide hybridization experiments indicated that the relative abundance of archaeal 16S rRNA in deep-sea se
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7

Li, Heling, Zhigang Chen, Qing Ning, Faliang Zong, and Hong Wang. "Isolation and Identification of Morganella morganii from Rhesus Monkey (Macaca mulatta) in China." Veterinary Sciences 11, no. 5 (2024): 223. http://dx.doi.org/10.3390/vetsci11050223.

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A bacterium was isolated and identified from the secretion of a rhesus monkey with endometritis. The morphological results showed that the strain exhibited round, convex, gray-white colonies with smooth surfaces and diameters ranging from 1 to 2 mm when cultured on Columbia blood agar at 37 °C for 24 h; on salmonella–shigella agar (S.S.) at 37 °C for 24 h, the colonies appeared round, flat, and translucent. Gram staining showed negative results with blunt ends and non-spore-forming characteristics. Molecular biology results showed that the 16S rRNA sequence of the strain revealed over 96.9% si
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8

Jamieson, Barrie G. M., Simon Tillier, Annie Tillier, et al. "Phylogeny of the Megascolecidae and Crassiclitellata (Annelida, Oligochaeta): combined versus partitioned analysis using nuclear (28S) and mitochondrial (12S, 16S) rDNA." Zoosystema 24, no. 4 (2002): 707–34. https://doi.org/10.5281/zenodo.4524860.

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Jamieson, Barrie G. M., Tillier, Simon, Tillier, Annie, Justine, Jean-Lou, Ling, Edmund, James, Sam, Mcdonald, Keith, Hugall, Andrew F. (2002): Phylogeny of the Megascolecidae and Crassiclitellata (Annelida, Oligochaeta): combined versus partitioned analysis using nuclear (28S) and mitochondrial (12S, 16S) rDNA. Zoosystema 24 (4): 707-734, DOI: 10.5281/zenodo.4524860
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9

González, José M., Rafel Simó, Ramon Massana, et al. "Bacterial Community Structure Associated with a Dimethylsulfoniopropionate-Producing North Atlantic Algal Bloom." Applied and Environmental Microbiology 66, no. 10 (2000): 4237–46. http://dx.doi.org/10.1128/aem.66.10.4237-4246.2000.

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ABSTRACT The bacteria associated with oceanic algal blooms are acknowledged to play important roles in carbon, nitrogen, and sulfur cycling, yet little information is available on their identities or phylogenetic affiliations. Three culture-independent methods were used to characterize bacteria from a dimethylsulfoniopropionate (DMSP)-producing algal bloom in the North Atlantic. Group-specific 16S rRNA-targeted oligonucleotides, 16S ribosomal DNA (rDNA) clone libraries, and terminal restriction fragment length polymorphism analysis all indicated that the marine Roseobacter lineage was numerica
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Verma, Subhash Chandra, Soumitra Paul Chowdhury, and Anil Kumar Tripathi. "Phylogeny based on 16S rDNA andnifHsequences ofRalstonia taiwanensisstrains isolated from nitrogen-fixing nodules ofMimosa pudica, in India." Canadian Journal of Microbiology 50, no. 5 (2004): 313–22. http://dx.doi.org/10.1139/w04-020.

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Bacterial symbionts present in the indeterminate-type nitrogen (N)-fixing nodules of Mimosa pudica grown in North and South India showed maximum similarity to Ralstonia taiwanensis on the basis of carbon-source utilization patterns and 16S rDNA sequence. Isolates from the nodules of M. pudica from North India and South India showed identical ARDRA (Amplified Ribosomal DNA Restriction Analysis) patterns with Sau3AI and RsaI, but AluI revealed dimorphy between the North Indian and South Indian isolates. Alignment of 16S rDNA sequences revealed similarity of North Indian isolates with an R. taiwa
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11

Duan, Hongfei, Guan Liu, Xiaobo Wang, et al. "Evaluation of the Ribosomal Protein S1 Gene (rpsA) as a Novel Biomarker forMycobacteriumSpecies Identification." BioMed Research International 2015 (2015): 1–8. http://dx.doi.org/10.1155/2015/271728.

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Objectives. To evaluate the resolution and reliability of therpsAgene, encoding ribosomal protein S1, as a novel biomarker for mycobacteria species identification.Methods. A segment of therpsAgene (565 bp) was amplified by PCR from 42 mycobacterial reference strains, 172 nontuberculosis mycobacteria clinical isolates, and 16M. tuberculosiscomplex clinical isolates. The PCR products were sequenced and aligned by using the multiple alignment algorithm in the MegAlign package (DNASTAR) and the MEGA program. A phylogenetic tree was constructed by the neighbor-joining method.Results. Comparative se
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12

Kim, Bum-Joon, Seung-Hyun Lee, Mi-Ae Lyu, et al. "Identification of Mycobacterial Species by Comparative Sequence Analysis of the RNA Polymerase Gene (rpoB)." Journal of Clinical Microbiology 37, no. 6 (1999): 1714–20. http://dx.doi.org/10.1128/jcm.37.6.1714-1720.1999.

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For the differentiation and identification of mycobacterial species, the rpoB gene, encoding the β subunit of RNA polymerase, was investigated. rpoB DNAs (342 bp) were amplified from 44 reference strains of mycobacteria and clinical isolates (107 strains) by PCR. The nucleotide sequences were directly determined (306 bp) and aligned by using the multiple alignment algorithm in the MegAlign package (DNASTAR) and the MEGA program. A phylogenetic tree was constructed by the neighbor-joining method. Comparative sequence analysis of rpoB DNAs provided the basis for species differentiation within th
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13

Jomantiene, R., R. E. Davis, A. Alminaite, D. Valiunas, and R. Jasinskaite. "First Report of Oat as Host of a Phytoplasma Belonging to Group 16SrI, Subgroup A." Plant Disease 86, no. 4 (2002): 443. http://dx.doi.org/10.1094/pdis.2002.86.4.443b.

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Diseased plants of oat (Avena sativa L.) exhibiting abnormal proliferation of spikelets were observed in the field in Raseniai, Lithuania. The possible association of a phytoplasma with the disease, termed oat proliferation (OatP), was determined using polymerase chain reaction (PCR) for amplification of phytoplasmal ribosomal (r) RNA gene (rDNA) sequences from template DNA extracted from the diseased oats. DNA extractions and nested PCRs were conducted as previously described (2). In the nested PCRs, the first reaction was primed by phytoplasma-universal primer pair P1/P7, and the second (nes
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14

Duduk, B., and A. Bertaccini. "Corn with Symptoms of Reddening: New Host of Stolbur Phytoplasma." Plant Disease 90, no. 10 (2006): 1313–19. http://dx.doi.org/10.1094/pd-90-1313.

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Recurrent epiphytotic outbreaks of a disease of uncertain etiology known as reddening of corn (Zea mays) have occurred in some areas of Serbia during the last 50 years. Affected plants show early and abnormal ripening, dry precociously, and have poor, shriveled grains. Using molecular tools, phytoplasmas were detected in diseased plants and their identity was subsequently deduced as a subgroup 16SrXII-A strain by a variety of supporting assays involving restriction fragment length polymorphism (RFLP) analysis of polymerase chain reaction (PCR)-amplified 16S rDNA and tuf gene sequences, selecti
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15

Li, Z. N., H. Min, Y. Yan, Z. Zhao, W. J. Wu, and Y. F. Wu. "First Report of Syringa oblata and S. reticulata Leafroll Disease in China." Plant Disease 93, no. 3 (2009): 322. http://dx.doi.org/10.1094/pdis-93-3-0322c.

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Syringa oblata is an important ornamental tree widely grown in China. In September of 2008, S. oblata plants exhibiting symptoms of leafroll and yellowing were found in a garden on the Northwest A&F University campus. Samples were collected from this site. Total DNA was extracted from 0.5 g of phloem tissue from leaf midribs and stems of each sample. DNA samples were analyzed with a nested PCR assay using phytoplasma 16S rDNA universal primers R16mF2/R16mR1 followed by specific primers R16F2n/R16R2 (1), which amplified a 1,452- and 1,246-bp product, respectively. We tested all 30 lilac sam
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16

Tabassum, Anika, Mihir Lal Saha, and Mohammad Nurul Islam. "Prevalence of multi-drug resistant bacteria in selected street food and water samples." Bangladesh Journal of Botany 44, no. 4 (2018): 621–27. http://dx.doi.org/10.3329/bjb.v44i4.38599.

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Present study was conducted to determine the bacteria and their multi-drug resistance pattern of Velpuri and water of Velpuri shop of different areas of Dhaka city. A total of 74 bacteria were isolated of which 26 isolates were subjected for further study. Eleven and 15 isolates from 26, were found Gram-positive and Gram-negative bacteria, respectively. Three isolates of Gram-positive bacteria were found rod shaped and spore formers which were identified as Bacillus spp. while eight isolates were found round shaped and nonspore formers and identified as Staphylococcus, Streptococcus, Planococc
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17

Rachman, Cinta, Petia Kabadjova, Rosica Valcheva, Hervé Prévost, and Xavier Dousset. "Identification of Carnobacterium Species by Restriction Fragment Length Polymorphism of the 16S-23S rRNA Gene Intergenic Spacer Region and Species-Specific PCR." Applied and Environmental Microbiology 70, no. 8 (2004): 4468–77. http://dx.doi.org/10.1128/aem.70.8.4468-4477.2004.

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ABSTRACT The genus Carnobacterium is currently divided into the following eight species: Carnobacterium piscicola, C. divergens, C. gallinarum, C. mobile, C. funditum, C. alterfunditum, C. inhibens, and C. viridans. An identification tool for the rapid differentiation of these eight Carnobacterium species was developed, based on the 16S-23S ribosomal DNA (rDNA) intergenic spacer region (ISR). PCR-restriction fragment length polymorphism (PCR-RFLP) analysis of this 16S-23S rDNA ISR was performed in order to obtain restriction profiles for all of the species. Three PCR amplicons, which were desi
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Acinas, Silvia G., Josefa Antón, and Francisco Rodríguez-Valera. "Diversity of Free-Living and Attached Bacteria in Offshore Western Mediterranean Waters as Depicted by Analysis of Genes Encoding 16S rRNA." Applied and Environmental Microbiology 65, no. 2 (1999): 514–22. http://dx.doi.org/10.1128/aem.65.2.514-522.1999.

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ABSTRACT In a previous study (S. G. Acinas, F. Rodrı́guez-Valera, and C. Pedrós-Alió, FEMS Microbiol. Ecol. 24:27–40, 1997), community fingerprinting by 16S rDNA restriction analysis applied to Mediterranean offshore waters showed that the free-living pelagic bacterial community was very different from the bacterial cells aggregated or attached to particles of more than about 8 μm. Here we have studied both assemblages at three depths (5, 50, and 400 m) by cloning and sequencing the 16S rDNA obtained from the same samples, and we have also studied the samples by scanning electron microscopy
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Urbanaviciene, L., R. Jomantiene, and R. E. Davis. "First Report of Barley as Host of a Phytoplasma Belonging to Group 16SrI, Subgroup B, and Ribosomal Protein Subgroup rpI-B in Lithuania." Plant Disease 89, no. 3 (2005): 339. http://dx.doi.org/10.1094/pd-89-0339a.

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Numerous diseased plants of barley (Hordeum vulgaris L.) exhibiting twisted, abnormally thin and yellowed awns, reduced spikelets, and general stunting and yellowing were observed in fields in the Vilnius and Kaisiadorys regions of Lithuania. The possible association of a phyto-plasma with the disease, termed barley deformation (BaDef), was assessed using polymerase chain reaction (PCR). Three phytoplasma universal primer pairs (P1/P7, R16F2n/R16R2, and rpF1/rpR1) (1,2,4) were employed to amplify ribosomal (r) RNA gene (rDNA) and ribosomal protein (rp) gene sequences. Template DNA extractions
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20

Jomantiene, R., J. L. Maas, R. E. Davis, and E. L. Dally. "Molecular Identification and Classification of a Phytoplasma Associated with Phyllody of Strawberry Fruit in Maryland." Plant Disease 85, no. 3 (2001): 335. http://dx.doi.org/10.1094/pdis.2001.85.3.335b.

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Several phytoplasmas have been reported to be associated with phyllody of strawberry fruit, including clover yellow edge, clover proliferation, clover phyllody, eastern and western aster yellows, STRAWB2, strawberry multicipita, and Mexican periwinkle virescence phytoplasmas. Plant symptoms in addition to phyllody may include chlorosis, virescence, stunting, or crown proliferation. In this report we describe a new phytoplasma in association with strawberry leafy fruit (SLF) disease in Maryland. Diseased plants exhibited fruit phyllody, floral virescence, leaf chlorosis, and plant stunting. Phy
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Carneiro, Regina, Don Dickson, Ayyamperumal Jeyaprakash, Byron Adams, and Myrian Tigano. "Phylogeny of Meloidogyne spp. based on 18S rDNA and the intergenic region of mitochondrial DNA sequences." Nematology 7, no. 6 (2005): 851–62. http://dx.doi.org/10.1163/156854105776186325.

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AbstractThe 18S rDNA of 19 populations of Meloidogyne spp. was amplified and directly sequenced. The region of mitochondrial DNA, located in the 3′ portion of the gene that codes for cytochrome oxidase subunit II (COII) through a portion of the 16S rRNA (lRNA) gene, from 16 of these populations was cloned and sequenced. Heteroplasmic sequences were identified from both rDNA and mtDNA regions for several taxa. Several sequences sampled from nominal taxa differed from previously published accounts. Phylogenetic trees based on alignments of these sequences were constructed using distance, parsimo
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Wang, Linqiong, Yi Li, Lihua Niu, Yu Dai, Yue Wu, and Qing Wang. "Isolation and growth kinetics of a novel phenol-degrading bacterium Microbacterium oxydans from the sediment of Taihu Lake (China)." Water Science and Technology 73, no. 8 (2016): 1882–90. http://dx.doi.org/10.2166/wst.2016.036.

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Seven phylogenetically diverse phenol-degrading bacterial strains designated as P1 to P7 were isolated from the industry-effluent dump sites of an industrial area near Taihu Lake, China. Through the 16S rDNA sequence analysis, these strains were widely distributed among five different genera: Rhodococcus (P1), Pseudomonas (P2–P4), Acinetobacter (P5), Alcaligenes (P6), and Microbacterium (P7). All seven isolates were capable of growing with phenol as the sole carbon source. Strain P7 was found to be a novel phenol-degrading strain by detailed morphological, physiological and biochemical charact
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Davis, R. E., E. L. Dally, and R. H. Converse. "Molecular Identification of a Phytoplasma Associated with Witches'-Broom Disease of Black Raspberry in Oregon and Its Classification in Group 16SrIII, New Subgroup Q." Plant Disease 85, no. 10 (2001): 1121. http://dx.doi.org/10.1094/pdis.2001.85.10.1121a.

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Plants of Rubus occidentalis (black raspberry) ‘Munger’ exhibiting symptoms of black raspberry witches'-broom (BRWB) disease were observed in commercial fields in Oregon (1). Symptoms were often severe, leading to death of infected plants, and a phytoplasma (mycoplasmalike bodies) was observed in ultrathin sections of diseased plants (1). In the current work, the association of phytoplasma with BRWB was assessed using the polymerase chain reaction (PCR) for specific amplification of phytoplasmal rDNA. DNA template for use in the PCR was extracted from plants as described elsewhere (2). Phytopl
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Kitahara, Marcelo V., Jaroslaw Stolarski, Stephen D. Cairns, Francesca Benzoni, Joel L. Stake, and David J. Miller. "The first modern solitary Agariciidae (Anthozoa, Scleractinia) revealed by molecular and microstructural analysis." Invertebrate Systematics 26, no. 3 (2012): 303. http://dx.doi.org/10.1071/is11053.

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Dactylotrochus cervicornis (= Tridacophyllia cervicornis Moseley, 1881), which occurs in Indo-Pacific waters between 73 and 852 m, was originally described as an astraeid but was later transferred to the Caryophylliidae. Assumed to be solitary, this species has no stolons and only one elongated fossa, and is unique among azooxanthellate scleractinians in often displaying extremely long thecal extensions that are septate and digitiform. Based on both molecular phylogenetic analyses (partial mitochondrial CO1 and 16S rDNA, and partial nuclear 28S rDNA) and morphological characteristics, we propo
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Long, J. Y., Y. H. Chen, and J. R. Xia. "First Report of a Group 16SrI Phytoplasma Associated with Amaranthus hypochondriacus Cladodes in China." Plant Disease 95, no. 7 (2011): 871. http://dx.doi.org/10.1094/pdis-03-11-0219.

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Amaranthus spp. are cultivated worldwide as leafy vegetable, cereal, and ornamentals. In China, stems and leaves of Amaranthus hypochondriacus L. are used as a vegetable (2). In July 2010, sporadic amaranth plants exhibiting symptoms of cladodes and spica proliferation were observed in a vegetable garden near Foshan, Guangdong, China. Stem samples were collected from two symptomatic and two asymptomatic plants. Total DNA was extracted with a modified cetyltrimethylammonium bromide (CTAB) method (1). Nested PCR with a combination of phytoplasma-specific universal primer pairs (P1/P7 and R16F2n/
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Benucci, Gian Maria Niccolò, Reid Longley, Peng Zhang, Qi Zhao, Gregory Bonito, and Fuqiang Yu. "Microbial communities associated with the black morel Morchella sextelata cultivated in greenhouses." PeerJ 7 (September 26, 2019): e7744. http://dx.doi.org/10.7717/peerj.7744.

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Morels (Morchella spp.) are iconic edible mushrooms with a long history of human consumption. Some microbial taxa are hypothesized to be important in triggering the formation of morel primordia and development of fruiting bodies, thus, there is interest in the microbial ecology of these fungi. To identify and compare fungal and prokaryotic communities in soils where Morchella sextelata is cultivated in outdoor greenhouses, ITS and 16S rDNA high throughput amplicon sequencing and microbiome analyses were performed. Pedobacter, Pseudomonas, Stenotrophomonas, and Flavobacterium were found to comp
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Plumb, Jason J., Joanne Bell, and David C. Stuckey. "Microbial Populations Associated with Treatment of an Industrial Dye Effluent in an Anaerobic Baffled Reactor." Applied and Environmental Microbiology 67, no. 7 (2001): 3226–35. http://dx.doi.org/10.1128/aem.67.7.3226-3235.2001.

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ABSTRACT Fluorescent in situ hybridization (FISH) using 16S and 23S rRNA-targeted probes together with construction of an archaeal 16S ribosomal DNA (rDNA) clone library was used to characterize the microbial populations of an anaerobic baffled reactor successfully treating industrial dye waste. Wastewater produced during the manufacture of food dyes containing several different azo and other dye compounds was decolorized and degraded under sulfidogenic and methanogenic conditions. Use of molecular methods to describe microbial populations showed that a diverse group of Bacteria andArchaea was
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ROSSI, NATALIA, CÉLIO MAGALHÃES, ELIS R. MESQUITA, and FERNANDO L. MANTELATTO. "Uncovering a hidden diversity: a new species of freshwater shrimp Macrobrachium (Decapoda: Caridea: Palaemonidae) from Neotropical region (Brazil) revealed by morphological review and mitochondrial genes analyses." Zootaxa 4732, no. 1 (2020): 177–95. http://dx.doi.org/10.11646/zootaxa.4732.1.9.

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A freshwater palaemonid shrimp from the São Francisco river basin in Brazil has been found to be a new species and is herein nominated as Macrobrachium veredensis sp. nov. It is morphologically similar to M. brasiliense (Heller, 1862), which is found in many rivers of South America. However, M. veredensis sp. nov. has a smooth carapace and few spinules on the second pereopods, while M. brasiliense has the anterolateral surface of the carapace with small spinules and the palm of the second pereopods with spines, spinules and setae. Despite their similar morphology with these subtle differences,
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Roth, Andreas, Udo Reischl, Anna Streubel, et al. "Novel Diagnostic Algorithm for Identification of Mycobacteria Using Genus-Specific Amplification of the 16S-23S rRNA Gene Spacer and Restriction Endonucleases." Journal of Clinical Microbiology 38, no. 3 (2000): 1094–104. http://dx.doi.org/10.1128/jcm.38.3.1094-1104.2000.

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A novel genus-specific PCR for mycobacteria with simple identification to the species level by restriction fragment length polymorphism (RFLP) was established using the 16S-23S ribosomal RNA gene (rDNA) spacer as a target. Panspecificity of primers was demonstrated on the genus level by testing 811 bacterial strains (122 species in 37 genera from 286 reference strains and 525 clinical isolates). All mycobacterial isolates (678 strains among 48 defined species and 5 indeterminate taxons) were amplified by the new primers. Among nonmycobacterial isolates, only Gordonia terrae was amplified. The
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Duc, Myron T. La, Masataka Satomi, and Kasthuri Venkateswaran. "Bacillus odysseyi sp. nov., a round-spore-forming bacillus isolated from the Mars Odyssey spacecraft." International Journal of Systematic and Evolutionary Microbiology 54, no. 1 (2004): 195–201. http://dx.doi.org/10.1099/ijs.0.02747-0.

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A round-spore-forming Bacillus species that produces an exosporium was isolated from the surface of the Mars Odyssey spacecraft. This novel species has been characterized on the basis of phenotypic traits, 16S rDNA sequence analysis and DNA–DNA hybridization. According to the results of these analyses, this strain belongs to the genus Bacillus and is a Gram-positive, aerobic, rod-shaped, endospore-forming eubacterium. Ultrathin sections of the spores showed the presence of an exosporium, spore coat, cortex and core. 16S rDNA sequence similarities between this strain, Bacillus fusiformis and Ba
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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 (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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Wei, T., Y. F. Wu, K. K. Wu, W. Hou, and Y. R. Li. "First Report of a 16SrI-C Group Phytoplasma Associated With a Yellows-Type Disease Affecting Willow Plants in China." Plant Disease 93, no. 2 (2009): 197. http://dx.doi.org/10.1094/pdis-93-2-0197b.

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In May of 2008, a phytoplasma-like disease was observed on willows (Salix babylonica Linn) grown in the Shaanxi Province. Affected plants showed yellowed leaves with green veins and dieback. Incidence of the disease was less than 10%. Samples were collected from 10 symptomatic and five asymptomatic willow plants from five different areas in Shaanxi Province. Total DNA was extracted from 0.5 g of leaf midrib and stem phloem tissue with a modified cetyltrimethylammoniumbromide (CTAB) method (3). Resulting DNA extracts were analyzed by a nested PCR assay using phytoplasma 16S rRNA gene primer pai
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Gao, R., J. Wang, X. D. Li, X. P. Zhu, and G. Z. Tian. "First Report of Spirea Witches'-Broom Disease in China." Plant Disease 91, no. 5 (2007): 635. http://dx.doi.org/10.1094/pdis-91-5-0635c.

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Bumald spirea (Spiarea bumalda Burv.) is an important ornamental tree widely grown in northern China. In August of 2006, spirea plants exhibiting symptoms of witches'-broom, stunting, yellowing, and shoot dieback were found at an incidence of 5 to 15% in Qingzhou City, Shandong Province, China. Total DNA was extracted separately from 0.1 g of phloem tissue from leaf midribs and stems of six symptomatic and six asymptomatic plants with a modified cetyltriethylammonium bromide (CTAB) method (3). Resulting DNA samples were analyzed for phytoplasma DNA by a nested PCR assay using phytoplasma unive
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Lee, I. M., K. D. Bottner, and M. C. Black. "First Report of Yucca Phyllody Associated with 16SrI-A Phytoplasmas in Texas." Plant Disease 91, no. 4 (2007): 467. http://dx.doi.org/10.1094/pdis-91-4-0467c.

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Buckley's yucca (Yucca constricta Buckl.) is a native flowering perennial plant widely distributed in Texas and northeast Mexico. It is also grown as an ornamental plant in its native range as well as in other dry regions in the United States and Mexico. In 2006, during an extended drought, Buckley's yucca plants sporadically exhibited phyllody and abnormal bud proliferation on the inflorescence in Uvalde County in southwestern Texas. Symptoms resembled those caused by phytoplasmal infection. Samples from four symptomatic and two asymptomatic yucca plants were collected. Total nucleic acid was
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Jomantiene, R., R. E. Davis, L. Antoniuk, and J. Staniulis. "First Report of Phytoplasmas in Soybean, Alfalfa, and Lupinus sp. in Lithuania." Plant Disease 84, no. 2 (2000): 198. http://dx.doi.org/10.1094/pdis.2000.84.2.198c.

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Plants of cultivated soybean (Glycine max) and alfalfa (Medicago sativa) in Dotnuva and of wild Lupinus sp. in Ledakalnis, Lithuania, exhibited symptoms that suggested phytoplasmal infections. Soybean plants were of normal growth habit but exhibited veinal necrosis. Alfalfa and Lupinus plants exhibited stunting, abnormally small leaves, and witches'-broom symptoms. Diseases in the plants were termed soybean veinal necrosis (SVN), alfalfa stunt (AlfS), and Lupinus stunt (LupS), respectively. The presence of phytoplasmas in diseased plants was assessed using polymerase chain reaction (PCR) for a
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Maes, Michael, Asara Vasupanrajit, Ketsupar Jirakran, et al. "Exploration of the Gut Microbiome in Thai Patients with Major Depressive Disorder Shows a Specific Bacterial Profile with Depletion of the Ruminococcus Genus as a Putative Biomarker." Cells 12, no. 9 (2023): 1240. http://dx.doi.org/10.3390/cells12091240.

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Maes et al. (2008) published the first paper demonstrating that major depressive disorder (MDD) is accompanied by abnormalities in the microbiota–gut–brain axis, as evidenced by elevated serum IgM/IgA to lipopolysaccharides (LPS) of Gram-negative bacteria, such as Morganella morganii and Klebsiella Pneumoniae. The latter aberrations, which point to increased gut permeability (leaky gut), are linked to activated neuro-immune and oxidative pathways in MDD. To delineate the profile and composition of the gut microbiome in Thai patients with MDD, we examined fecal samples of 32 MDD patients and 37
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Sliwinski, Marek K., and Robert M. Goodman. "Spatial Heterogeneity of Crenarchaeal Assemblages within Mesophilic Soil Ecosystems as Revealed by PCR-Single-Stranded Conformation Polymorphism Profiling." Applied and Environmental Microbiology 70, no. 3 (2004): 1811–20. http://dx.doi.org/10.1128/aem.70.3.1811-1820.2004.

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ABSTRACT Microbial ecologists have discovered novel rRNA genes (rDNA) in mesophilic soil habitats worldwide, including sequences that affiliate phylogenetically within the division Crenarchaeota (domain Archaea). To characterize the spatial distribution of crenarchaeal assemblages in mesophilic soil habitats, we profiled amplified crenarchaeal 16S rDNA sequences from diverse soil ecosystems by using PCR-single-stranded-conformation polymorphism (PCR-SSCP) analysis. PCR-SSCP profiles provide a measure of relative microbial diversity in terms of richness (number of different phylotypes as estima
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Chen, Mei-Feng, Chih-Hsiang Chang, Chuan Chiang-Ni, et al. "Rapid analysis of bacterial composition in prosthetic joint infection by 16S rRNA metagenomic sequencing." Bone & Joint Research 8, no. 8 (2019): 367–77. http://dx.doi.org/10.1302/2046-3758.88.bjr-2019-0003.r2.

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ObjectivesProsthetic joint infection (PJI) is the most common cause of arthroplasty failure. However, infection is often difficult to detect by conventional bacterial cultures, for which false-negative rates are 23% to 35%. In contrast, 16S rRNA metagenomics has been shown to quantitatively detect unculturable, unsuspected, and unviable pathogens. In this study, we investigated the use of 16S rRNA metagenomics for detection of bacterial pathogens in synovial fluid (SF) from patients with hip or knee PJI.MethodsWe analyzed the bacterial composition of 22 SF samples collected from 11 patients wi
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Pat, Fahri, Pedük Fidan, Neşe Akçay, Hatice Kızıl Pat, and Ercan Arıcan. "Comparative 16s metagenomic analysis of prokaryotic diversity in freshwater and permanent snow-line glacial lakes in Türkiye." Archives of Biological Sciences, no. 00 (2024): 16. http://dx.doi.org/10.2298/abs240324016p.

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Freshwater lakes are critical to healthy ecosystems, providing vital services like drinking water and recreation for surrounding communities. Microorganisms within these ecosystems play essential roles, driving biogeochemical cycles for elements like carbon, nitrogen, and sulfur. This study utilized a metagenomic approach to examine the prokaryotic communities of three freshwater lakes in T?rkiye: the Eber and Bey?ehir lakes, located at close altitudes (967 m and 1,115 m, respectively), which serve as primary water sources for nearby communities, and Lake Uludag Buzlu (2,390 m) that lies at th
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Stefan, Andrei, Jannick Van Cauwenberghe, Craita Maria Rosu, et al. "Nodules of Medicago spp. Host a Diverse Community of Rhizobial Species in Natural Ecosystems." Agronomy 14, no. 9 (2024): 2156. http://dx.doi.org/10.3390/agronomy14092156.

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Biological nitrogen fixation by rhizobia-nodulated legumes reduces the dependence on synthetic nitrogen fertilizers. Identification of locally adapted rhizobia may uncover economically valuable strains for sustainable agriculture. This study investigated the diversity and symbiotic potential of rhizobia associated with three Medicago species from Eastern Romania’s ecosystems. Phenotypic screening ensured that only rhizobial species were retained for molecular characterization. 16S rDNA sequencing clustered the isolates into four distinct groups: Sinorhizobium meliloti, Sinorhizobium medicae, R
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Crosslin, J. M., P. B. Hamm, J. E. Eggers, S. I. Rondon, V. G. Sengoda, and J. E. Munyaneza. "First Report of Zebra Chip Disease and “Candidatus Liberibacter solanacearum” on Potatoes in Oregon and Washington State." Plant Disease 96, no. 3 (2012): 452. http://dx.doi.org/10.1094/pdis-10-11-0894.

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In August of 2011, potato (Solanum tuberosum) tubers grown in the lower Columbia Basin of southern Washington State and northern Oregon were observed with internal discolorations suggestive of zebra chip disease (ZC). Symptoms included brown spots, streaks, and stripes in and near the vascular tissue, typical of ZC (1). Symptoms were observed in cvs. Alturas, Russet Norkotah, Pike, Ranger Russet, Umatilla Russet, and Russet Burbank. Foliar symptoms on plants that produced symptomatic tubers included purple discoloration in upper leaves, leaf rolling, axial bud elongation, chlorosis, leaf scorc
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de Souza, Leonardo Santos, Cynthia M. Asorey, and Javier Sellanes. "Melanella martarum sp. nov. (Gastropoda: Eulimidae): the first parasitic deep-sea snail reported for the Salas & Gomez Ridge." PeerJ 12 (April 23, 2024): e16932. http://dx.doi.org/10.7717/peerj.16932.

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Eulimidae is a highly diverse family of gastropods that are often parasites of echinoderms. They are cosmopolitan and live from the intertidal to great depths. Despite its wide geographic and bathymetric distribution, no species of Eulimidae have been reported for the Salas & Gómez Ridge to date. In this study, we describe Melanella martarum sp. nov., which was collected during the EPIC oceanographic cruise onboard RV Mirai (JAMSTEC, Japan) in 2019. Seven specimens were collected with a modified Agassiz trawl on the summit of seamount “Pearl” (Zhemchuznaya) in the Salas & Gómez Ridge (
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Zhou, Qiaoyi, Jinjing Gao, Xueyan Sun, et al. "Immunomodulatory Mechanisms of Tea Leaf Polysaccharide in Mice with Cyclophosphamide-Induced Immunosuppression Based on Gut Flora and Metabolomics." Foods 13, no. 18 (2024): 2994. http://dx.doi.org/10.3390/foods13182994.

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Tea polysaccharides (TPSs) are receiving increasing attention because of their diverse pharmacological and biological activities. Here, we explored the immunoregulatory mechanisms of TPSs from fresh tea leaves in a mouse model of cyclophosphamide (CTX)-induced immunosuppression in terms of gut microbiota and metabolites. We observed that TPSs significantly increased the body weight and alleviated CTX-induced thymus atrophy in the immunosuppressed mice; they also increased the plasma levels of immunoglobulins A and M, interleukin (IL) 1β, IL-6, inducible nitric oxide synthase, and tumor necrosi
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Huang, X. L., J. Y. Chen, S. N. Zhou, L. C. Xie, H. B. Jiang, and L. Y. Dong. "Vertical microbiological variation of a coastal aquifer in southern China." Water Science and Technology 65, no. 4 (2012): 703–12. http://dx.doi.org/10.2166/wst.2012.886.

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Microbial communities in a coastal aquifer in the Zhuhai region of southern China were investigated by culture-independent molecular approaches. Four 16S rRNA gene libraries of three groundwater samples from varied depths and one seawater sample were constructed and analysed by the amplified ribosomal DNA restriction analysis technique (ARDRA). The phylogenetic analysis indicated that the 16S rDNA of clones presenting dominant ARDRA patterns were most similar to Proteobacteria, Bacteroidetes, Actinobacteria, Planctomycetes, and candidate divisions OPx (such as OP3, OP8, and OP11). In samples e
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Marteinsson, V., A. Klonowski, E. Reynisson, P. Vannier, B. D. Sigurdsson, and M. Ólafsson. "Microbial colonisation in diverse surface soil types in Surtsey and diversity analysis of its subsurface microbiota." Biogeosciences Discussions 11, no. 9 (2014): 13775–808. http://dx.doi.org/10.5194/bgd-11-13775-2014.

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Abstract. Colonisation of life on Surtsey has been observed systematically since the formation of the island 50 years ago. Although the first colonisers were prokaryotes, such as bacteria and blue-green algae, most studies have been focusing on settlement of plants and animals but less on microbial succession. To explore microbial colonization in diverse soils and the influence of associate vegetation and birds on numbers of environmental bacteria, we collected 45 samples from different soils types on the surface of the island. Total viable bacterial counts were performed with plate count at 2
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Alminaite, A., R. E. Davis, D. Valiunas, and R. Jomantiene. "First Report of a Group 16SrI, Subgroup B, Phytoplasma in Diseased Epilobium hirsutum in the Region of Tallin, Estonia." Plant Disease 86, no. 10 (2002): 1177. http://dx.doi.org/10.1094/pdis.2002.86.10.1177a.

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Symptoms of phyllody of flowers and general plant yellowing indicating possible phytoplasma infection were observed in diseased plants of hairy willow-weed (Epilobium hirsutum L., family Onagraceae) growing in a meadow at Harku Village near Tallin, Estonia. DNA was extracted from diseased E. hirsutum using a Genomic DNA Purification Kit (Fermentas AB, Vilnius, Lithuania) and used as a template in nested polymerase chain reaction (PCR). Ribosomal (r) DNA was initially amplified in PCR primed by phytoplasma universal primer pair P1/P7 (4) and reamplified in PCR primed by nested primer pair 16SF2
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Okuda, Seiichi, James P. Prince, Robert E. Davis, et al. "Two Groups of Phytoplasmas from Japan Distinguished on the Basis of Amplification and Restriction Analysis of 16S rDNA." Plant Disease 81, no. 3 (1997): 301–5. http://dx.doi.org/10.1094/pdis.1997.81.3.301.

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Phytoplasmas (mycoplasmalike organisms, MLOs) associated with mitsuba (Japanese hone-wort) witches'-broom (JHW), garland chrysanthemum witches'-broom (GCW), eggplant dwarf (ED), tomato yellows (TY), marguerite yellows (MY), gentian witches'-broom (GW), and tsu-wabuki witches'-broom (TW) in Japan were investigated by polymerase chain reaction (PCR) amplification of DNA and restriction enzyme analysis of PCR products. The phytoplasmas could be separated into two groups, one containing strains JHW, GCW, ED, TY, and MY, and the other containing strains GW and TW, corresponding to two groups previo
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Lee, I. M., K. D. Bottner, J. E. Munyaneza, G. A. Secor, and N. C. Gudmestad. "Clover Proliferation Group (16SrVI) Subgroup A (16SrVI-A) Phytoplasma is a Probable Causal Agent of Potato Purple Top Disease in Washington and Oregon." Plant Disease 88, no. 4 (2004): 429. http://dx.doi.org/10.1094/pdis.2004.88.4.429b.

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An epidemic of purple top disease of potato (Solanum tuberosum) occurred in the Columbia Basin Region of Washington and Oregon in 2002 and 2003, causing great economic loss in the potato industry (1). Symptoms of potato purple top (PPT) were characterized by upright terminal shoots, upward leaf rolling, chlorosis, red or purplish discoloration of new leaves, proliferation of axillary shoots with basal swelling, and the formation of aerial tubers. Preliminary studies on PPT disease suggested phytoplasma as a possible cause (1). In this study, 78 potato samples (including five asymptomatic) were
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Turenne, C. Y., L. Thibert, K. Williams, et al. "Mycobacterium saskatchewanense sp. nov., a novel slowly growing scotochromogenic species from human clinical isolates related to Mycobacterium interjectum and Accuprobe-positive for Mycobacterium avium complex." International Journal of Systematic and Evolutionary Microbiology 54, no. 3 (2004): 659–67. http://dx.doi.org/10.1099/ijs.0.02739-0.

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A pigmented, slowly growing Mycobacterium avium complex AccuProbe-positive organism was isolated from the sputum and pleural fluid of a 72-year-old female with bronchiectasis. The unusual morphology of the organism prompted further identification by 16S rRNA gene sequencing, revealing a perfect identity with previously uncharacterized strain Mycobacterium sp. MCRO 8 (GenBank accession no. X93034), with the closest established species by 16S rDNA analysis being Mycobacterium interjectum. HPLC of the organism corresponded to previously obtained patterns identified as M. interjectum-like and, upo
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Popović, T., Ž. Ivanović, S. Živković, N. Trkulja, and M. Ignjatov. "First Report of Brenneria nigrifluens as the Causal Agent of Shallow-Bark Canker on Walnut Trees (Juglans regia) in Serbia." Plant Disease 97, no. 11 (2013): 1504. http://dx.doi.org/10.1094/pdis-03-13-0267-pdn.

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In late summer 2011, shallow, irregular cankers were observed on trunks and branches of non-chemically-treated walnut trees (Juglans regia L.) on a 30-year-old orchard in the region of Fruška Gora (Vojvodina, Serbia). Disease incidence was ~80% and yield loss was ~50%. For pathogen isolation, small pieces (~5 mm diameter) of wood tissue collected at the edge of the cankers were macerated in sterile distilled water and streaked onto nutrient agar with 5% sucrose. Plates were then incubated at 28°C for 2 days. The prevalent bacterial colonies and those similar in appearance to Brenneria nigriflu
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