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1.
Sci Total Environ ; 946: 174277, 2024 Jun 27.
Article in English | MEDLINE | ID: mdl-38944300

ABSTRACT

Microorganisms form dynamic communities with plants, providing benefits such as nutrient acquisition and stress resilience. Understanding how these microorganisms are affected by environmental factors such as growth conditions and soil characteristics are essential for harnessing these communities for sustainable agriculture practices and their response to climate change. The microbiome associated to Lupinus angustifolius, a legume native in Europe, with a high protein value and stress resilience was characterized for the first time. Using 16S rRNA gene and ITS amplicon sequencing, we characterized the compositional and temporal changes of the bacterial and fungal communities associated to the soil, rhizosphere, and plant compartments where Lupinus angustifolius grows naturally. Our results suggest that the main difference in the soil microbial communities is related to the edaphic properties, although environmental factors such as temperature, humidity or rainfall also influenced the composition of the soil microbial communities. We also characterized the bacterial communities associated with the rhizosphere, roots, nodules, and leaves of wild plants collected in the field and compared them against plants obtained under greenhouse conditions. In the plant compartments, the bacterial composition appeared to be more affected by the growing conditions (field vs greenhouse), than by soil characteristics or location. These results can be used to identify key taxa that may play crucial roles in the development and adaptation of the host plant and its associated microbiota to environmental changes and highlight the importance of characterizing the plant microbiomes in their natural habitats. Soil, influenced by climatic seasons, shapes the plant microbiome assembly. Lupinus recruits a core microbiome across rhizosphere, roots, nodules, and leaves, that is stable across locations. However, cultivation conditions may alter microbiome dynamics, impacting the adaptability of its components. Wild plants show a resilient and adaptable microbiome while germination and cultivation in greenhouse conditions alter its composition and vulnerability.

2.
Article in English | MEDLINE | ID: mdl-38512750

ABSTRACT

The field of microbial taxonomy is dynamic, aiming to provide a stable and contemporary classification system for prokaryotes. Traditionally, reliance on phenotypic characteristics limited the comprehensive understanding of microbial diversity and evolution. The introduction of molecular techniques, particularly DNA sequencing and genomics, has transformed our perception of prokaryotic diversity. In the past two decades, advancements in genome sequencing have transitioned from traditional methods to a genome-based taxonomic framework, not only to define species, but also higher taxonomic ranks. As technology and databases rapidly expand, maintaining updated standards is crucial. This work seeks to revise the 2018 guidelines for applying genome sequencing data in microbial taxonomy, adapting minimal standards and recommendations to reflect technological progress during this period.


Subject(s)
Fatty Acids , Sequence Analysis, DNA , Phylogeny , Bacterial Typing Techniques , RNA, Ribosomal, 16S/genetics , DNA, Bacterial/genetics , Base Composition , Fatty Acids/chemistry
3.
Antonie Van Leeuwenhoek ; 116(11): 1139-1150, 2023 Nov.
Article in English | MEDLINE | ID: mdl-37658955

ABSTRACT

A non-motile, novel actinobacterial strain, Kera-3T, which is a gram-positive, aerobic, rod-shaped bacterium, was isolated from human keratinocytes on 1/10 diluted R2A agar. Whole-cell hydrolysis of amino acids revealed the presence of meso-DAP, alanine, and glutamic acid. The predominant menaquinone was MK-9 (H8), whereas the primary fatty acids were C16:0 and C18:1 ω9c. The major phospholipids included diphosphatidylglycerol and aminophospholipids, along with an unidentified phosphoglycolipid and an aminophosphoglycolipid. The G+C content of the genomic DNA was 73.2%, based on the complete genome sequence. Phylogenetic analyses of the 16S rRNA gene sequence and phylogenomic analysis of 91 core genes showed that strain Kera-3T formed a new lineage in the family Iamiaceae, with the closest neighbour Rhabdothermincola sediminis SYSU G02662T having 91.19% 16S rRNA gene sequence identity. A comparative genomic study of the predicted general metabolism and carbohydrate-active enzymes supported the phylogenetic and phylogenomic data. Based on the analysis of physiological, biochemical, and genomic characteristics, strain Kera-3T can be distinguished from known genera in the family Iamiaceae and represents a novel genus and species. Therefore, the name Dermatobacter hominis gen. nov., sp. nov. was proposed, with the type strain Kera-3T (= KACC 22415T = LMG 32493T).

4.
Int J Syst Evol Microbiol ; 72(11)2022 Nov.
Article in English | MEDLINE | ID: mdl-36394451

ABSTRACT

Six actinobacterial strains isolated from diverse legume tissues collected in various locations in Spain were characterized to determine their taxonomic status. Using 16S rRNA gene sequencing, the strains were primarily identified as members of the genus Micromonospora with more than 99 % similarity. Digital DNA-DNA hybridization values and average nucleotide identities between the six strains and the nearest type strains confirmed that each strain represented a novel species. Genome sequences were analysed to infer their metabolic profiles, their potential to produce secondary metabolites and plant growth promoting features. Chemotaxonomic and physiological studies were carried out to complete the phenotypic characterization and to distinguish the new Micromonospora species. The genomic and phenotypic characterization of the Micromonospora strains strongly support their classification as representatives of new species with the following names: Micromonospora alfalfae sp. nov., Micromonospora cabrerizensis sp. nov., Micromonospora foliorum sp. nov., Micromonospora hortensis sp. nov., Micromonospora salmantinae sp. nov. and Micromonospora trifolii sp. nov., with the type strains MED01T, LAH09T, PSH25T, NIE111T, PSH03T and NIE79T, respectively.


Subject(s)
Fabaceae , Micromonospora , RNA, Ribosomal, 16S/genetics , Bacterial Typing Techniques , DNA, Bacterial/genetics , Phylogeny , Sequence Analysis, DNA , Base Composition , Fatty Acids/chemistry , Vegetables
5.
Int J Syst Evol Microbiol ; 72(10)2022 Oct.
Article in English | MEDLINE | ID: mdl-36256446

ABSTRACT

The taxonomic status of two Gordonia strains, designated BEN371 and CON9T, isolated from stable foams on activated sludge plants was the subject of a polyphasic study which also included the type strains of Gordonia species and three authenticated Gordonia amarae strains recovered from such foams. Phylogenetic analyses of 16S rRNA gene sequences showed that these isolates formed a compact cluster suggesting a well-supported lineage together with a second branch containing the G. amarae strains. A phylogenomic tree based on sequences of 92 core genes extracted from whole genome sequences of the isolates, the G. amarae strains and Gordonia type strains confirmed the assignment of the isolates and the G. amarae strains to separate but closely associated lineages. Average nucleotide index (ANI) and digital DNA-DNA hybridisation (dDDH) similarities showed that BEN371 and CON9T belonged to the same species and had chemotaxonomic and morphological features consistent with their assignment to the genus Gordonia. The isolates and the G. amarae strains were distinguished using a range of phenotypic features and by low ANI and dDDH values of 84.2 and 27.0 %, respectively. These data supplemented with associated genome characteristics show that BEN371 and CON9T represent a novel species of the genus Gordonia. The name proposed for members of this taxon is Gordonia pseudamarae sp. nov. with isolate CON9T (=DSM 43602T=JCM 35249T) as the type strain.


Subject(s)
Actinobacteria , Gordonia Bacterium , Water Purification , Sewage/microbiology , RNA, Ribosomal, 16S/genetics , Phylogeny , DNA, Bacterial/genetics , Base Composition , Bacterial Typing Techniques , Sequence Analysis, DNA , Fatty Acids/chemistry , Nucleotides
6.
Front Plant Sci ; 13: 872356, 2022.
Article in English | MEDLINE | ID: mdl-35401599

ABSTRACT

Understanding plant-microbe interactions with the possibility to modulate the plant's microbiome is essential to design new strategies for a more productive and sustainable agriculture and to maintain natural ecosystems. Therefore, a key question is how to design bacterial consortia that will yield the desired host phenotype. This work was designed to identify the potential genomic features involved in the interaction between Micromonospora and known host plants. Seventy-four Micromonospora genomes representing diverse environments were used to generate a database of all potentially plant-related genes using a novel bioinformatic pipeline that combined screening for microbial-plant related features and comparison with available plant host proteomes. The strains were recovered in three clusters, highly correlated with several environments: plant-associated, soil/rhizosphere, and marine/mangrove. Irrespective of their isolation source, most strains shared genes coding for commonly screened plant growth promotion features, while differences in plant colonization related traits were observed. When Arabidopsis thaliana plants were inoculated with representative Micromonospora strains selected from the three environments, significant differences were in found in the corresponding plant phenotypes. Our results indicate that the identified genomic signatures help select those strains with the highest probability to successfully colonize the plant and contribute to its wellbeing. These results also suggest that plant growth promotion markers alone are not good indicators for the selection of beneficial bacteria to improve crop production and the recovery of ecosystems.

7.
Article in English | MEDLINE | ID: mdl-35085063

ABSTRACT

An alkaliphilic actinobacterium, designated VN6-2T, was isolated from marine sediment collected from Valparaíso Bay, Chile. Strain VN6-2T formed yellowish-white branched substrate mycelium without fragmentation. Aerial mycelium was well developed, forming wavy or spiral spore chains. Strain VN6-2T exhibited a 16S rRNA gene sequence similarity of 93.9 % to Salinactinospora qingdaonensis CXB832T, 93.7 % to Murinocardiopsis flavida 14-Be-013T, and 93.7 % to Lipingzhangella halophila 14-Be-013T. Genome sequencing revealed a genome size of 5.9 Mb and an in silico G+C content of 69.3 mol%. Both of the phylogenetic analyses based on 16S rRNA gene sequences and the up-to-date bacterial core gene sequences revealed that strain VN6-2T formed a distinct monophyletic clade within the family Nocardiopsaceae. Chemotaxonomic assessment of strain VN6-2T showed that the major fatty acids were iso-C16 : 0, anteiso-C17 : 0 and 10-methyl-C18 : 0, and the predominant respiratory quinones were MK-9, MK-9(H2) and MK-9(H4). Whole-cell hydrolysates contained meso-diaminopimelic acid as the cell-wall diamino acid, and ribose and xylose as the diagnostic sugars. The polar lipid profile consisted of diphosphatidylglycerol, phosphatidylglycerol, phosphatidylcholine, aminophospholipids, glycolipid and phospholipid. Based on the results of this polyphasic study, a novel genus, Spiractinospora gen. nov., is proposed within the family Nocardiopsaceae and the type species Spiractinospora alimapuensis gen. nov., sp. nov. The type strain is VN6-2T (CECT 30026T, CCUG 66258T). On the basis of the phylogenetic results herein, we also propose that Nocardiopsis arvandica and Nocardiopsis litoralis are later heterotypic synonyms of Nocardiopsis sinuspersici and Nocardiopsis kunsanensis, respectively, for which emended descriptions are given.


Subject(s)
Geologic Sediments/microbiology , Nocardiopsis , Phylogeny , Seawater/microbiology , Bacterial Typing Techniques , Base Composition , Bays , Chile , DNA, Bacterial/genetics , Fatty Acids/chemistry , Nocardiopsis/classification , Nocardiopsis/isolation & purification , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Vitamin K 2/chemistry
8.
Front Microbiol ; 9: 1360, 2018.
Article in English | MEDLINE | ID: mdl-29988535

ABSTRACT

The type isolates of species Micromonospora saelicesensis and Micromonospora noduli are Gram-stain positive actinobacteria that were originally isolated from nitrogen fixing nodules of the legumes Lupinus angustifolius and Pisum sativum, respectively. These two species are very closely related and questions arise as to whether they should be merged into a single species. To better delineate the relationship of M. saelicesensis and M. noduli, 10 strains isolated from plant tissue (nodules and leaves) and identified by their 16S rRNA gene sequences as either M. saelicensesis or M. noduli, based on a cut-off value of ≥99.5% were selected for whole-genome sequencing and compared with the type strains of M. saelicesensis Lupac 09T and M. noduli GUI43T using overall genome relatedness indices (OGRI) which included ANI, OrthoANI and digital DNA-DNA hybridization. Whole- and core-genome phylogenomic analyses were also carried out. These results were compared with the topologies of the 16S rRNA and gyrB gene phylogenies. Good correlation was found between all trees except for the 16S rRNA gene. Overall results also supported the current classification of M. saelicesensis and M. noduli as separate species. Especially useful was the core-genome phylogenetic analyses based on 92 genes and the dDDH results which were highly correlated. The importance of using more than one strain for a better definition of a species was also shown. A series of in vitro phenotypic assays performed at different times were compared with in silico predictions based on genomic data. In vitro phenotypic tests showed discrepancies among the independent studies, confirming the lack of reproducibility even when tests were performed in the same laboratory. On the other hand, the use of in silico predictions proved useful for defining a stable phenotype profile among the strains analyzed. These results provide a working framework for defining Micromonospora species at the genomic and phenotypic level.

9.
Int J Syst Evol Microbiol ; 68(9): 2712-2721, 2018 Sep.
Article in English | MEDLINE | ID: mdl-29969090

ABSTRACT

A polyphasic study was undertaken to establish the taxonomic status of a Blastococcus strain isolated from an extreme hyper-arid Atacama Desert soil. The isolate, strain P6T, was found to have chemotaxonomic and morphological properties consistent with its classification in the genus Blastococcus. It was shown to form a well-supported branch in the Blastococcus 16S rRNA gene tree together with the type strains of Blastococcus capsensis and Blastococcus saxobsidens and was distinguished from the latter, its close phylogenetic neighbour, by a broad range of phenotypic properties. The draft genome sequence of isolate P6T showed 84.6 % average nucleotide identity, 83.0 % average amino acid identity and a digital DNA-DNA hybridisation value of 27.8 % in comparison with the genome sequence of B. saxobsidens DSM 44509T, values consistent with its assignment to a separate species. Based on these data it is proposed that isolate P6T (NCIMB 15090T=NRRL B-65468T) be assigned to the genus Blastococcus as Blastococcus atacamensis sp. nov. Analysis of the whole genome sequence of B. atacamensis P6T, with 3778 open reading frames and a genome size of 3.9 Mb showed the presence of genes and gene clusters that encode for properties that reflect its adaptation to the extreme environmental conditions that prevail in Atacama Desert soils.


Subject(s)
Actinomycetales/classification , Desert Climate , Phylogeny , Soil Microbiology , Actinomycetales/genetics , Actinomycetales/isolation & purification , Bacterial Typing Techniques , Base Composition , Chile , DNA, Bacterial/genetics , Fatty Acids/chemistry , Nucleic Acid Hybridization , Phospholipids/chemistry , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA
10.
Int J Syst Evol Microbiol ; 68(1): 248-253, 2018 Jan.
Article in English | MEDLINE | ID: mdl-29148367

ABSTRACT

Two actinobacterial isolates, strains SG15T and SGB14T, were recovered through a microbial diversity study of nitrogen fixing nodules from Pisum sativum plants collected in Salamanca (Spain). The taxonomic status of these isolates was determined using a polyphasic approach and both presented chemotaxonomic and morphological properties consistent with their classification in the genus Micromonospora. For strains SG15T and SGB14T, the highest 16S rRNA gene sequence similarities were observed with Micromonospora coxensis JCM 13248T (99.2 %) and Micromonospora purpureochromogenes DSM 43821T (99.4 %), respectively. However, strains SG15T and SGB14T were readily distinguished from their phylogenetic neighbours both genetically and phenotypically indicating that they represent two new Micromonospora species. The following names are proposed for these species: Micromonosporaphytophila sp. nov. type strain SG15T (=CECT 9369T; =DSM 105363T), and Micromonosporaluteiviridis sp. nov. type strain SGB14T (=CECT 9370T; =DSM 105362T).


Subject(s)
Micromonospora/classification , Phylogeny , Pisum sativum/microbiology , Root Nodules, Plant/microbiology , Bacterial Typing Techniques , Base Composition , DNA, Bacterial/genetics , Micromonospora/genetics , Micromonospora/isolation & purification , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Spain
11.
Int J Syst Evol Microbiol ; 67(8): 2980-2985, 2017 Aug.
Article in English | MEDLINE | ID: mdl-28820114

ABSTRACT

Eleven actinobacterial strains were isolated from a rock sample collected in the Atacama Desert. Molecular typing by BOX-PCR divided the strains into three clusters and showed that, although very similar, they were not clones. Three strains, ATK01, ATK03T and ATK17, each representing one of the defined BOX clusters, were chosen for further characterization. Phylogenetic analysis indicated that the strains were related to the genus Pseudonocardia and were recovered in a cluster together with Pseudonocardia bannensis YIM 63101T and Pseudonocardia xinjiangensis AS 4.1538T. Chemotaxonomic analyses confirmed their affiliation to the genus Pseudonocardia but differences were found between the new strains and their closest phylogenetic relatives. Physiological and fatty acid analyses also revealed differences between these strains and their phylogenetic neighbours supporting their status as a distinct species. Based on the overall data, it is proposed that strains ATK01, ATK03T and ATK17 represent a novel species of the genus Pseudonocardia for which the name Pseudonocardia nigra sp. nov. is proposed (type strain ATK03T=DSM 104088T=CECT 9183T).


Subject(s)
Actinomycetales/classification , Desert Climate , Phylogeny , Actinomycetales/genetics , Actinomycetales/isolation & purification , Bacterial Typing Techniques , Base Composition , Chile , DNA, Bacterial/genetics , Fatty Acids/chemistry , Nucleic Acid Hybridization , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA
12.
Eur. J. Ost. Clin. Rel. Res ; 12(1): 28-32, ene.-abr. 2017. ilus
Article in Spanish | IBECS | ID: ibc-179158

ABSTRACT

La Maniobra Hemodinámica del Abdomen es una de las técnicas más utilizadas en Osteopatía para el tratamiento de determinadas disfunciones viscerales. La técnica pretende generar un estímulo neuro-vascular a nivel abdominopélvico, eliminar la congestión abdominopélvica, liberar algunas de las adherencias existentes entre las vísceras y las estructuras vecinas recuperando así la movilidad del órgano, mejorar y estimular los movimientos peristálticos del sistema digestivo, mejora de la función del sistema nervioso vegetativo, normalización del metabolismo dependiente de la víscera y disminuir o eliminar los dolores referidos al aparato locomotor de origen visceral. Las contraindicaciones al tratamiento con dicha técnica son básicamente procesos neoplásicos, infecciosos y hemorrágicos. Es imprescindible realizar un adecuado diagnóstico diferencial y determinar la disfunción osteopática visceral


No disponible


Subject(s)
Humans , Hemodynamics , Manipulation, Osteopathic/methods , Constipation/therapy , Osteopathic Medicine
13.
Eur. J. Ost. Clin. Rel. Res ; 11(3): 128-137, sept.-dic. 2016. graf, tab
Article in Spanish | IBECS | ID: ibc-179155

ABSTRACT

Introducción: El estreñimiento es una de los motivos de consulta más habituales en Medicina del Aparato Digestivo con entre un 25-50 % de las visitas. Tiene un gran impacto en el empeoramiento de la calidad de vida del paciente ya sean recién nacidos, adultos o pacientes con enfermedades neurológicas. Los pacientes con estreñimiento suelen tener el sistema inmune alterado con el consiguiente riesgo de padecer enfermedades autoinmunes. Se asocia el estreñimiento con un aumento del riesgo de cáncer colorrectal. Objetivo: Presentar una visión actual de una de las patologías más comunes en Medicina Digestiva; el estreñimiento, y un posible tratamiento como es la Osteopatía Visceral Material y métodos: Revisión bibliográfica del estreñimiento y los ensayos controlados aleatorizado (ECA) realizados con técnicas viscerales. La búsqueda se realizó a través de CINHAL, OTseeker, Lilacs, Scielo, Ebsco Host, Proquest, Science Direct y Dialnet. Resultados: La búsqueda finaliza con nueve estudios, en los cuales, se incluía el tratamiento visceral para valorar la mejoría de la sintomatología del estreñimiento funcional. Conclusiones: El tratamiento manual de intestino delgado y grueso mejora la sintomatología gastrointestinal, el dolor abdominal y aumenta el número de deposiciones semanales


No disponible


Subject(s)
Humans , Constipation/therapy , Abdominal Pain/etiology , Manipulation, Osteopathic/methods , Quality of Life , Osteopathic Medicine
14.
Int J Syst Evol Microbiol ; 66(11): 4492-4500, 2016 Nov.
Article in English | MEDLINE | ID: mdl-27498827

ABSTRACT

Three actinobacterial strains were isolated from roots of the salt-marsh plant Halimione portulacoides collected in Ria de Aveiro, Portugal. Molecular typing using enterobacterial repetitive intergenic consensus ERIC-PCR fingerprinting showed the strains to be highly similar. Phylogenetic analyses based on the 16S rRNA gene sequence and multilocus sequence analysis (MLSA) using gyrB, rpoB, recA and ppk and 16S rRNA genes sequences showed that the strains represented a member of the genus Microbacterium, with Microbacterium lacus DSM 18910T as the closest phylogenetic relative. DNA-DNA hybridization between strain RZ63T and its closest relative was below 70 %, supporting the hypothesis that it represented a distinct genomic species. Chemotaxonomic analyses of the novel strains and their DNA G+C contents confirmed their affiliation to the genus Microbacterium, however, the peptidoglycan of RZ63T contained diaminobutyric acid as the diagnostic diamino acid. In addition, physiological and fatty acid analyses revealed differences between these strains and their phylogenetic relatives, reinforcing their status as a distinct species. Based on the physiological, genetic and chemotaxonomic characterisation it is proposed that the strains studied represent a novel species of the genus Microbacterium for which the name Microbacterium diaminobutyricum sp. nov. is proposed (type strain RZ63T=DSM 27101T=CECT 8355T).


Subject(s)
Actinomycetales/classification , Amaranthaceae/microbiology , Phylogeny , Actinomycetales/genetics , Actinomycetales/isolation & purification , Bacterial Typing Techniques , Base Composition , Cell Wall/chemistry , DNA, Bacterial/genetics , Fatty Acids/chemistry , Multilocus Sequence Typing , Nucleic Acid Hybridization , Peptidoglycan/chemistry , Portugal , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA
15.
Int J Syst Evol Microbiol ; 66(9): 3509-3514, 2016 Sep.
Article in English | MEDLINE | ID: mdl-27282917

ABSTRACT

A diversity study on the presence of strains representing the genus Micromonospora in Pisum sativum nodules collected from Cañizal (Spain) has provided evidence of the high number of isolates that might represent novel species. In the present work, we have characterized three of these isolates: GUI23T, GUI43T and GUI63T. Phenotypic and genotypic analyses confirmed that all strains represent novel species of the genus Micromonospora with the following proposed names: Micromonospora ureilytica sp. nov., type strain GUI23T (=CECT 9022T=DSM 101692T), Micromonospora noduli sp. nov., type strain GUI43T (=CECT 9020T=DSM 101694T), and Micromonospora vinacea sp. nov., type strain GUI63T (=CECT 9019T=DSM 101695T).


Subject(s)
Micromonospora/classification , Phylogeny , Pisum sativum/microbiology , Root Nodules, Plant/microbiology , Bacterial Typing Techniques , DNA, Bacterial/genetics , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Spain
16.
Syst Appl Microbiol ; 39(4): 237-242, 2016 Jun.
Article in English | MEDLINE | ID: mdl-27220477

ABSTRACT

Three novel actinobacterial strains, GUI2(T), GUI42 and CR21 isolated from nodular tissues and the rhizosphere of a sweet pea plant collected in Cañizal, Spain were identified according to their 16S rRNA gene sequences as new members of the genus Micromonospora. The closest phylogenetic members were found to be Micromonospora saelicesensis (99.2%) "Micromonospora zeae" (99.1%), "Micromonospora jinlongensis" (99%), Micromonospora lupini (98.9%) and Micromonospora zamorensis (98.8%). To resolve their full taxonomic position, four additional genes (atpD, gyrB, recA, rpoB) were partially sequenced and compared to available Micromonospora type strain sequences. DNA-DNA hybridization, BOX-PCR and ARDRA profiles confirmed that these strains represent a novel genomic species. All strains contained meso-diaminopimelic and hydroxy-diaminopimelic acids in their cell wall. Their fatty acid profiles comprised iso-C15:0, iso-C16:0 and anteiso-C15:0 as major components. The polar lipids diphosphatidylglycerol, phosphatidylethanolamine and phosphatidylinositol were found in the type strain GUI2(T) which also contained MK-10(H4) as the major menaquinone. Physiological and biochemical characteristics also differentiated the new isolates. Based on the integration of the above studies, strains GUI2(T), GUI42 and CR21 represent a novel Micromonospora species and we propose the name Micromonospora luteifusca sp. nov. The type strain is GUI2(T) (=CECT 8846(T); =DSM 100204(T)).


Subject(s)
Bacterial Typing Techniques , Micromonospora , Pisum sativum/microbiology , Plant Roots/microbiology , Soil Microbiology , Base Sequence , Cell Wall/metabolism , DNA Gyrase/genetics , DNA, Bacterial/genetics , DNA-Directed RNA Polymerases/genetics , Diaminopimelic Acid/analysis , Fatty Acids/analysis , Micromonospora/classification , Micromonospora/genetics , Micromonospora/isolation & purification , Nucleic Acid Hybridization , Peptidoglycan/analysis , RNA, Ribosomal, 16S/genetics , Rec A Recombinases/genetics , Rhizosphere , Sequence Analysis, DNA , Spain , Transcription Factors/genetics
17.
Syst Appl Microbiol ; 39(4): 243-251, 2016 Jun.
Article in English | MEDLINE | ID: mdl-27108251

ABSTRACT

A polyphasic study was designed to determine the taxonomic provenance of three Modestobacter strains isolated from an extreme hyper-arid Atacama Desert soil. The strains, isolates KNN 45-1a, KNN 45-2b(T) and KNN 45-3b, were shown to have chemotaxonomic and morphological properties in line with their classification in the genus Modestobacter. The isolates had identical 16S rRNA gene sequences and formed a branch in the Modestobacter gene tree that was most closely related to the type strain of Modestobacter marinus (99.6% similarity). All three isolates were distinguished readily from Modestobacter type strains by a broad range of phenotypic properties, by qualitative and quantitative differences in fatty acid profiles and by BOX fingerprint patterns. The whole genome sequence of isolate KNN 45-2b(T) showed 89.3% average nucleotide identity, 90.1% (SD: 10.97%) average amino acid identity and a digital DNA-DNA hybridization value of 42.4±3.1 against the genome sequence of M. marinus DSM 45201(T), values consistent with its assignment to a separate species. On the basis of all of these data, it is proposed that the isolates be assigned to the genus Modestobacter as Modestobacter caceresii sp. nov. with isolate KNN 45-2b(T) (CECT 9023(T)=DSM 101691(T)) as the type strain. Analysis of the whole-genome sequence of M. caceresii KNN 45-2b(T), with 4683 open reading frames and a genome size of ∽4.96Mb, revealed the presence of genes and gene-clusters that encode for properties relevant to its adaptability to harsh environmental conditions prevalent in extreme hyper arid Atacama Desert soils.


Subject(s)
Actinobacteria/classification , Actinobacteria/metabolism , Bacterial Typing Techniques , Desert Climate , Soil Microbiology , Actinobacteria/genetics , Actinobacteria/isolation & purification , Adaptation, Physiological/genetics , Base Sequence , DNA, Bacterial/genetics , Fatty Acids/analysis , Genome, Bacterial/genetics , Nucleic Acid Hybridization , Phylogeny , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA
18.
Front Microbiol ; 6: 1341, 2015.
Article in English | MEDLINE | ID: mdl-26648923

ABSTRACT

For a long time, it was believed that a healthy plant did not harbor any microorganisms within its tissues, as these were often considered detrimental for the plant. In the last three decades, the numbers of studies on plant microbe-interactions has led to a change in our view and we now know that many of these invisible partners are essential for the overall welfare of the plant. The application of Next Generation Sequencing techniques is a powerful tool that has permitted the detection and identification of microbial communities in healthy plants. Among the new plant microbe interactions recently reported several actinobacteria such as Micromonospora are included. Micromonospora is a Gram-positive bacterium with a wide geographical distribution; it can be found in the soil, mangrove sediments, and freshwater and marine ecosistems. In the last years our group has focused on the isolation of Micromonospora strains from nitrogen fixing nodules of both leguminous and actinorhizal plants and reported for the first time its wide distribution in nitrogen fixing nodules of both types of plants. These studies have shown how this microoganism had been largely overlooked in this niche due to its slow growth. Surprisingly, the genetic diversity of Micromonospora strains isolated from nodules is very high and several new species have been described. The current data indicate that Micromonospora saelicesensis is the most frequently isolated species from the nodular tissues of both leguminous and actinorhizal plants. Further studies have also been carried out to confirm the presence of Micromonospora inside the nodule tissues, mainly by specific in situ hybridization. The information derived from the genome of the model strain, Micromonospora lupini, Lupac 08, has provided useful information as to how this bacterium may relate with its host plant. Several strategies potentially necessary for Micromonospora to thrive in the soil, a highly competitive, and rough environment, and as an endophytic bacterium with the capacity to colonize the internal plant tissues which are protected from the invasion of other soil microbes were identified. The genome data also revealed the potential of M. lupini Lupac 08 as a plant growth promoting bacterium. Several loci involved in plant growth promotion features such as the production of siderophores, phytohormones, and the degradation of chitin (biocontrol) were also located on the genome and the functionality of these genes was confirmed in the laboratory. In addition, when several host plants species were inoculated with Micromonospora strains, the plant growth enhancing effect was evident under greenhouse conditions. Unexpectedly, a high number of plant-cell wall degrading enzymes were also detected, a trait usually found only in pathogenic bacteria. Thus, Micromonospora can be added to the list of new plant-microbe interactions. The current data indicate that this microorganism may have an important application in agriculture and other biotechnological processes. The available information is promising but limited, much research is still needed to determine which is the ecological function of Micromonospora in interaction with nitrogen fixing plants.

19.
Eur. J. Ost. Clin. Rel. Res ; 10(2): 37-46, mayo-ago. 2015. tab, ilus
Article in Spanish | IBECS | ID: ibc-141063

ABSTRACT

Introducción: El estreñimiento funcional es la patología más frecuente en Gastroenterología. Recientes estudios aseveran una presencia del 78% de dolores referidos al aparato locomotor de origen visceral. Objetivos: Evaluar la Maniobra Hemodinámica abdominal modificada (MHAM) en pacientes estreñidos a través del Umbral de dolor a la presión (UDP) en los niveles dorsales T10,T11 y T12, inclinometría para la flexión lumbar, el test de extensibilidad Sit and Reach y la valoración postural del paciente con el programa SAPO. Material y Métodos: Ensayo clínico aleatorizado controlado, a doble ciego en 20 pacientes (n=20); Grupo Control (GC: n=10) y Grupo Experimental (GE: n=10). Resultados: Algometría T11: en el GE la diferencia media fue de 1,05 kg (IC95%=0,501 a 1,603; p=0,001; d Cohen= 0,84). Algometría T12: en el GE la diferencia fue 1,23 kg (IC95%=0,499 a 1,969; p=0,002 significativa; d Cohen=0,89). Inclinometría T12: en el GE se produjo un incremento medio de 10,4º (IC 95%=7,59 a 13,21º; p<0,001; d Cohen=0,94).Test Sit and Reach: en el GE el aumento medio fue de 3,47cm (IC95%= 2,35 a 4,58 cm; p<0,001; d Cohen=0,77). Conclusiones: La aplicación de la Maniobra Hemodinámica Abdominal Modificada en pacientes con estreñimiento funcional genera cambios inmediatos aumentando la tolerancia al dolor en las vértebras T11 y T12, aumentando la flexión lumbar y mejorando la extensibilidad de los miembros inferiores (AU)


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Subject(s)
Constipation/complications , Constipation/diagnosis , Constipation/pathology , Hemodynamics/physiology , Bone Diseases/complications , Bone Diseases/epidemiology , Manipulation, Osteopathic/methods , Manipulation, Osteopathic , Photogrammetry/methods , Double-Blind Method , Osteopathic Medicine/methods , Osteopathic Medicine/standards , Osteopathic Medicine/trends , Manipulation, Osteopathic/instrumentation , Manipulation, Osteopathic/trends , Supine Position , Analysis of Variance
20.
Antonie Van Leeuwenhoek ; 108(2): 311-20, 2015 Aug.
Article in English | MEDLINE | ID: mdl-25987397

ABSTRACT

A polyphasic study was undertaken to establish the taxonomic status of two Modestobacter strains isolated from the surface of deteriorated sandstone of a historic building in Salamanca, Spain. The strains, isolates MDVD1(T) and MON 3.1(T), were found to have chemotaxonomic and morphological properties consistent with their classification in the genus Modestobacter and to form distinct phyletic lines in the Modestobacter 16S rRNA gene tree. Isolate MDVD1(T) was found to be closely related to the type strain of Modestobacter versicolor (98.7 % similarity) and isolate MON 3.1(T) to the type strain of Modestobacter multiseptatus (98.6 % similarity). The isolates were distinguished readily from one another and from the Modestobacter type strains by a broad range of phenotypic properties, by qualitative and quantitative differences in fatty acid profiles and by BOX fingerprint patterns. On the basis of these data, it is proposed that the isolates be classified in the genus Modestobacter as Modestobacter lapidis sp. nov. and Modestobacter muralis sp. nov., with isolates MON 3.1(T) (CECT 8844(T) = DSM 100206(T)) and MDVD1(T) (CECT 8845(T) = DSM 100205(T)) as the respective type strains.


Subject(s)
Actinobacteria/classification , Actinobacteria/isolation & purification , Environmental Microbiology , Actinobacteria/genetics , Actinobacteria/physiology , Bacterial Typing Techniques , Cluster Analysis , Cytosol/chemistry , DNA, Bacterial/chemistry , DNA, Bacterial/genetics , DNA, Ribosomal/chemistry , DNA, Ribosomal/genetics , Fatty Acids/analysis , Molecular Sequence Data , Phylogeny , RNA, Ribosomal, 16S/genetics , Sequence Analysis, DNA , Spain
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