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Barros KO, Souza RM, Palladino F, Cadete RM, Santos ARO, Goes-Neto A, Berkov A, Zilli JE, Vital MJS, Lachance MA, Rosa CA. Cyberlindnera dasilvae sp. nov., a xylitol-producing yeast species isolated from rotting wood and frass of cerambycid larva. Int J Syst Evol Microbiol 2021; 71. [PMID: 34494946 DOI: 10.1099/ijsem.0.004986] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Six yeast isolates were obtained from rotting wood samples in Brazil and frass of a cerambycid beetle larva in French Guiana. Sequence analysis of the ITS-5.8S region and the D1/D2 domains of the large subunit rRNA gene showed that the isolates represent a novel species of Cyberlindnera. This novel species is related to Cyberlindnera japonica, Cyberlindnera xylosilytica, Candida easanensis and Candida maesa. It is heterothallic and produces asci with two or four hat-shaped ascospores. The name Cyberlindnera dasilvae sp. nov. is proposed to accommodate the novel species. The holotype of Cy. dasilvae is CBS 16129T and the designated paratype is CBS 16584. The MycoBank number is 838252. All isolates of Cy. dasilvae were able to convert xylose into xylitol with maximum xylitol production within 60 and 72 h. The isolates produced xylitol with values ranging from 12.61 to 31.79 g l-1 in yeast extract-peptone-xylose medium with 5% xylose. When the isolates were tested in sugarcane bagasse hydrolysate containing around 35-38 g l-1d-xylose, isolate UFMG-CM-Y519 showed maximum xylitol production.
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Affiliation(s)
- Katharina O Barros
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Rafael M Souza
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Fernanda Palladino
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Raquel M Cadete
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Ana Raquel O Santos
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Aristóteles Goes-Neto
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Amy Berkov
- Department of Biology, City College and the Graduate Center, The City University of New York, Convent Avenue at 138 St., New York, NY 10031, USA
| | - Jerri E Zilli
- Embrapa Agrobiologia, Seropédica, Rio de Janeiro, Brazil
| | - Marcos J S Vital
- Departamento de Biologia, Universidade Federal de Roraima, Campus do Paricarana, Boa Vista, Brazil
| | - Marc-André Lachance
- Department of Biology, University of Western Ontario, London, ON N6A 5B7, Canada
| | - Carlos A Rosa
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
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Vergara C, Araujo KEC, Urquiaga S, Schultz N, Balieiro FDC, Medeiros PS, Santos LA, Xavier GR, Zilli JE. Dark Septate Endophytic Fungi Help Tomato to Acquire Nutrients from Ground Plant Material. Front Microbiol 2017; 8:2437. [PMID: 29312163 PMCID: PMC5732191 DOI: 10.3389/fmicb.2017.02437] [Citation(s) in RCA: 34] [Impact Index Per Article: 4.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/01/2017] [Accepted: 11/23/2017] [Indexed: 01/09/2023] Open
Abstract
Dark septate endophytic (DSE) fungi are facultative biotrophs that associate with hundreds of plant species, contributing to their growth. These fungi may therefore aid in the search for sustainable agricultural practices. However, several ecological functions of DSE fungi need further clarification. The present study investigated the effects of DSE fungi inoculation on nutrient recovery efficiency, nutrient accumulation, and growth of tomato plants fertilized with organic and inorganic N sources. Two experiments were carried out under greenhouse conditions in a randomized blocks design, with five replicates of tomato seedlings grown in pots filled with non-sterile sandy soil. Tomato seedlings (cv. Santa Clara I-5300) inoculated with DSE fungi (isolates A101, A104, and A105) and without DSE fungi (control) were transplanted to pots filled with 12 kg of soil which had previously received finely ground plant material [Canavalia ensiformis (L.)] that was shoot enriched with 0.7 atom % 15N (organic N source experiment) or ammonium sulfate-15N enriched with 1 atom % 15N (mineral N source experiment). Growth indicators, nutrient content, amount of nitrogen (N) in the plant derived from ammonium sulfate-15N or C. ensiformis-15N, and recovery efficiency of 15N, P, and K by plants were quantified 50 days after transplanting. The treatment inoculated with DSE fungi and supplied with an organic N source showed significantly higher recovery efficiency of 15N, P, and K. In addition, the 15N, N, P, K, Ca, Mg, Fe, Mn, and Zn content, plant height, leaf number, leaf area (only for the A104 inoculation), and shoot dry matter increased. In contrast, the only positive effects observed in the presence of an inorganic N source were fertilizer-K recovery efficiency, content of K, and leaf area when inoculated with the fungus A104. Inoculation with A101, A104, and A105 promoted the growth of tomato using organic N source (finely ground C. ensiformis-15N plant material).
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Affiliation(s)
- Carlos Vergara
- Departamento de Ciências do Solo, Universidade Federal Rural do Rio de Janeiro, Seropédica, Brazil
| | - Karla E. C. Araujo
- Departamento de Fitotecnia, Universidade Federal Rural do Rio de Janeiro, Seropédica, Brazil
| | | | - Nivaldo Schultz
- Departamento de Ciências do Solo, Universidade Federal Rural do Rio de Janeiro, Seropédica, Brazil
| | | | - Peter S. Medeiros
- Departamento de Ciências do Solo, Universidade Federal Rural do Rio de Janeiro, Seropédica, Brazil
| | - Leandro A. Santos
- Departamento de Ciências do Solo, Universidade Federal Rural do Rio de Janeiro, Seropédica, Brazil
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Turatto MF, Dourado FDS, Zilli JE, Botelho GR. Control potential of Meloidogyne javanica and Ditylenchus spp. using fluorescent Pseudomonas and Bacillus spp. Braz J Microbiol 2017; 49:54-58. [PMID: 28939304 PMCID: PMC5790646 DOI: 10.1016/j.bjm.2017.03.015] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/01/2016] [Revised: 03/16/2017] [Accepted: 03/17/2017] [Indexed: 11/27/2022] Open
Abstract
Plant Growth Promoting Rhizobacteria (PGPR) have different mechanisms of action in the development of plants, such as growth promotion, production of phytohormones and antibiotic substances and changes in root exudates. These help to control plant diseases. In order to evaluate the potential of microorganisms in the control of Meloidogyne javanica and Ditylenchus spp., five rhizobacteria isolated from rhizosphere of garlic cultivated in the Curitibanos (SC) region were tested. Hatching chambers were set on Petri dishes, in which were added 10mL of bacterial suspension and 1mL of M. javanica eggs suspension, at the rate of 4500, on the filter paper of each chamber. The same procedure was performed with 300 juvenile Ditylenchus spp. The experimental design was completely randomized, with four replications. The evaluations were performed every 72h for nine days. The antagonized population of nematodes was determined in Peters counting chamber, determining the percentage hatching (for M. javanica) and motility (for Ditylenchus spp). Isolates CBSAL02 and CBSAL05 significantly reduced the hatching of M. javanica eggs (74% and 54.77%, respectively) and the motility of Ditylenchus spp. (55.19% and 53.53%, respectively) in vitro. Isolates were identified as belonging to the genera Pseudomonas (CBSAL05) and Bacillus (CBSAL02).
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Baraúna AC, Rouws LFM, Simoes-Araujo JL, Dos Reis Junior FB, Iannetta PPM, Maluk M, Goi SR, Reis VM, James EK, Zilli JE. Rhizobium altiplani sp. nov., isolated from effective nodules on Mimosa pudica growing in untypically alkaline soil in central Brazil. Int J Syst Evol Microbiol 2016; 66:4118-4124. [PMID: 27453319 DOI: 10.1099/ijsem.0.001322] [Citation(s) in RCA: 25] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Root nodule bacteria were isolated from nodules on Mimosa pudica L. growing in neutral-alkaline soils from the Distrito Federal in central Brazil. The 16S rRNA gene sequence analysis of 10 strains placed them into the genus Rhizobium with the closest neighbouring species (each with 99 % similarity) being Rhizobium grahamii, Rhizobium cauense, Rhizobium mesoamericanum and Rhizobium tibeticum. This high similarity, however, was not confirmed by multi-locus sequence analysis (MLSA) using three housekeeping genes (recA, glnII and rpoB), which revealed R. mesoamericanum CCGE 501T to be the closest type strain (92 % sequence similarity or less). Chemotaxonomic data, including fatty acid profiles [with majority being C19 : 0 cyclo ω8c and summed feature 8 (C18 : 1ω7c/C18 : 1ω6c)], DNA G+C content (57.6 mol%), and carbon compound utilization patterns supported the placement of the novel strains in the genus Rhizobium. Results of average nucleotide identity (ANI) differentiated the novel strains from the closest species of the genus Rhizobium, R. mesoamericanum, R. grahamii and R. tibeticum with 89.0, 88.1 and 87.8 % similarity, respectively. The symbiotic genes essential for nodulation (nodC) and nitrogen fixation (nifH) were most similar (99-100 %) to those of R. mesoamericanum, another Mimosa-nodulating species. Based on the current data, these 10 strains represent a novel species of the genus Rhizobium for which the name Rhizobium altiplani sp. nov. is proposed. The type strain is BR 10423T (=HAMBI 3664T).
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Affiliation(s)
- Alexandre C Baraúna
- Universidade Federal Rural do Rio de Janeiro, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23890-000, Brazil
| | - Luc F M Rouws
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Jean L Simoes-Araujo
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | | | | | - Marta Maluk
- The James Hutton Institute, Invergowrie, Dundee DD2 5DA, UK
| | - Silvia R Goi
- Universidade Federal Rural do Rio de Janeiro, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23890-000, Brazil
| | - Veronica M Reis
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Euan K James
- The James Hutton Institute, Invergowrie, Dundee DD2 5DA, UK
| | - Jerri E Zilli
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
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Cadete RM, Cheab MAM, Santos RO, Safar SVB, Zilli JE, Vital MJS, Basso LC, Lee CF, Kurtzman CP, Lachance MA, Rosa CA. Cyberlindnera xylosilytica sp. nov., a xylitol-producing yeast species isolated from lignocellulosic materials. Int J Syst Evol Microbiol 2015; 65:2968-2974. [PMID: 26025941 DOI: 10.1099/ijs.0.000363] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Independent surveys of yeasts associated with lignocellulosic-related materials led to the discovery of a novel yeast species belonging to the Cyberlindnera clade (Saccharomycotina, Ascomycota). Analysis of the sequences of the internal transcribed spacer (ITS) region and the D1/D2 domains of the large subunit rRNA gene showed that this species is related to C. japonica, C. maesa and C. easanensis. Six isolates were obtained from different sources, including rotting wood, tree bark and sugar cane filter cake in Brazil, frass from white oak in the USA and decayed leaf in Taiwan. A novel species is suggested to accommodate these isolates, for which the name C. xylosilytica sp. nov. is proposed. The type strain of C. xylosilytica sp. nov. is NRRL YB-2097(T) ( = CBS 13984(T) = UFMG-CM-Y347(T)) and the allotype is UFMG-CM-Y409 ( = CBS 14083). The novel species is heterothallic and complementary mating types are represented by the type and allotype strains. The MycoBank number is MB 811428.
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Affiliation(s)
- Raquel M Cadete
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Monaliza A M Cheab
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Renata O Santos
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | - Silvana V B Safar
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
| | | | - Marcos J S Vital
- Departamento de Biologia, Universidade Federal de Roraima, Campus do Paricarana, Boa Vista, Brazil
| | - Luiz C Basso
- Departamento de Ciências Biológicas, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Ching-Fu Lee
- Department of Applied Science, National Hsinchu University of Education, Hsinchu, 300 Taiwan, ROC
| | - Cletus P Kurtzman
- Bacterial Foodborne Pathogens and Mycology Research Unit, National Center for Agricultural Utilization Research, Agricultural Research Service, US Department of Agriculture, Peoria, IL, USA
| | - Marc-André Lachance
- Department of Biology, University of Western Ontario, N6A 5B7 London, Ontario, Canada
| | - Carlos A Rosa
- Departamento de Microbiologia, ICB, C.P. 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG, 31270-901, Brazil
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Zilli JE, Baraúna AC, da Silva K, De Meyer SE, Farias ENC, Kaminski PE, da Costa IB, Ardley JK, Willems A, Camacho NN, Dourado FDS, O'Hara G. Bradyrhizobium neotropicale sp. nov., isolated from effective nodules of Centrolobium paraense. Int J Syst Evol Microbiol 2014; 64:3950-3957. [PMID: 25205796 DOI: 10.1099/ijs.0.065458-0] [Citation(s) in RCA: 39] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Root nodule bacteria were isolated from Centrolobium paraense Tul. grown in soils from the Amazon region, State of Roraima (Brazil). 16S rRNA gene sequence analysis of seven strains (BR 10247(T), BR 10296, BR 10297, BR 10298, BR 10299, BR 10300 and BR 10301) placed them in the genus Bradyrhizobium with the closest neighbours being the type strains of Bradyrhizobium paxllaeri (98.8 % similarity), Bradyrhizobium icense (98.8 %), Bradyrhizobium lablabi (98.7 %), Bradyrhizobium jicamae (98.6 %), Bradyrhizobium elkanii (98.6 %), Bradyrhizobium pachyrhizi (98.6 %) and Bradyrhizobium retamae (98.3 %). This high similarity, however, was not confirmed by the intergenic transcribed spacer (ITS) 16S-23S rRNA region sequence analysis nor by multi-locus sequence analysis. Phylogenetic analyses of five housekeeping genes (dnaK, glnII, gyrB, recA and rpoB) revealed Bradyrhizobium iriomotense EK05(T) ( = LMG 24129(T)) to be the most closely related type strain (95.7 % sequence similarity or less). Chemotaxonomic data, including fatty acid profiles [major components being C16 : 0 and summed feature 8 (18 : 1ω6c/18 : 1ω7c)], DNA G+C content, slow growth rate and carbon compound utilization patterns, supported the placement of the novel strains in the genus Bradyrhizobium. Results of DNA-DNA relatedness studies and physiological data (especially carbon source utilization) differentiated the strains from the closest recognized species of the genus Bradyrhizobium. Symbiosis-related genes for nodulation (nodC) and nitrogen fixation (nifH) placed the novel species in a new branch within the genus Bradyrhizobium. Based on the current data, these seven strains represent a novel species for which the name Bradyrhizobium neotropicale sp. nov. is proposed. The type strain is BR 10247(T) ( = HAMBI 3599(T)).
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Affiliation(s)
- Jerri E Zilli
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Alexandre C Baraúna
- Universidade Federal Rural do Rio de Janeiro, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23890-000, Brazil
| | - Krisle da Silva
- Embrapa Roraima, Rodovia BR 174 km 08, Boa Vista, Roraima 69301-970, Brazil
| | - Sofie E De Meyer
- Laboratory of Microbiology, Department of Biochemistry and Microbiology (WE10), Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
- Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Eliane N C Farias
- Embrapa Roraima, Rodovia BR 174 km 08, Boa Vista, Roraima 69301-970, Brazil
| | - Paulo E Kaminski
- Embrapa Roraima, Rodovia BR 174 km 08, Boa Vista, Roraima 69301-970, Brazil
| | - Ismaele B da Costa
- Embrapa Roraima, Rodovia BR 174 km 08, Boa Vista, Roraima 69301-970, Brazil
| | - Julie K Ardley
- Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Anne Willems
- Laboratory of Microbiology, Department of Biochemistry and Microbiology (WE10), Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
| | - Natália N Camacho
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Fernanda Dos S Dourado
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Graham O'Hara
- Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
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da Silva K, De Meyer SE, Rouws LFM, Farias ENC, Dos Santos MAO, O'Hara G, Ardley JK, Willems A, Pitard RM, Zilli JE. Bradyrhizobium ingae sp. nov., isolated from effective nodules of Inga laurina grown in Cerrado soil. Int J Syst Evol Microbiol 2014; 64:3395-3401. [PMID: 25013231 DOI: 10.1099/ijs.0.063727-0] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Root-nodule bacteria were isolated from Inga laurina (Sw.) Willd. growing in the Cerrado Amazon region, State of Roraima, Brazil. The 16S rRNA gene sequences of six strains (BR 10250(T), BR 10248, BR 10249, BR 10251, BR 10252 and BR 10253) showed low similarities with currently described species of the genus Bradyrhizobium. Phylogenetic analyses of sequences of five housekeeping genes (dnaK, glnII, gyrB, recA and rpoB) revealed Bradyrhizobium iriomotense EK05(T) to be the closest type strain (97.4% sequence similarity or less). Chemotaxonomic data, including fatty acid profiles [with the major components C16:0 and summed feature 8 (C18:1ω6c/C18:1ω7c)], the slow growth rate and carbon compound utilization patterns supported the assignment of our strains to the genus Bradyrhizobium. Results from DNA-DNA hybridizations and physiological traits differentiated our strains from the closest related species of the genus Bradyrhizobium with validly published names. Sequences of symbiosis-related genes for nodulation (nodC) and nitrogen fixation (nifH) grouped together with those of B. iriomotense EK05(T) and Bradyrhizobium sp. strains BR 6610 (used as a commercial inoculant for Inga marginata in Brazil) and TUXTLAS-10 (previously observed in Central America). Based on these data, the six strains represent a novel species, for which the name Bradyrhizobium ingae sp. nov. is proposed. The type strain is BR 10250(T) ( = HAMBI 3600(T)).
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Affiliation(s)
- Krisle da Silva
- Embrapa Roraima, Rodovia BR 174 km 08, Boa Vista, Roraima 69301-970, Brazil
| | - Sofie E De Meyer
- Laboratory of Microbiology, Department of Biochemistry and Microbiology (WE10), Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium.,Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Luc F M Rouws
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Eliane N C Farias
- Embrapa Roraima, Rodovia BR 174 km 08, Boa Vista, Roraima 69301-970, Brazil
| | - Marco A O Dos Santos
- Universidade Estadual de Roraima, Rua Sete de Setembro, 231, Canarinho, Boa Vista - Roraima, 69306-530, Brazil
| | - Graham O'Hara
- Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Julie K Ardley
- Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Anne Willems
- Laboratory of Microbiology, Department of Biochemistry and Microbiology (WE10), Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
| | - Rosa Maria Pitard
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Jerri E Zilli
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
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Silva FV, De Meyer SE, Simões-Araújo JL, Barbé TDC, Xavier GR, O'Hara G, Ardley JK, Rumjanek NG, Willems A, Zilli JE. Bradyrhizobium manausense sp. nov., isolated from effective nodules of Vigna unguiculata grown in Brazilian Amazonian rainforest soils. Int J Syst Evol Microbiol 2014; 64:2358-2363. [PMID: 24744018 DOI: 10.1099/ijs.0.061259-0] [Citation(s) in RCA: 38] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
Root nodule bacteria were trapped within cowpea (Vigna unguiculata) in soils with different cultivation histories collected from the Amazonian rainforest in northern Brazil. Analysis of the 16S rRNA gene sequences of six strains (BR 3351(T), BR 3307, BR 3310, BR 3315, BR 3323 BR and BR 3361) isolated from cowpea nodules showed that they formed a distinct group within the genus Bradyrhizobium, which was separate from previously identified type strains. Phylogenetic analyses of three housekeeping genes (glnII, recA and rpoB) revealed that Bradyrhizobium huanghuaihaiense CCBAU 23303(T) was the most closely related type strain (96% sequence similarity or lower). Chemotaxonomic data, including fatty acid profiles (predominant fatty acids being C16 : 0 and summed feature 8), the slow growth rate and carbon compound utilization patterns supported the assignment of the strains to the genus Bradyrhizobium. The results of DNA-DNA hybridizations, antibiotic resistance and physiological tests differentiated these novel strains from the most closely related species of the genus Bradyrhizobium with validly published names. Symbiosis-related genes for nodulation (nodC) and nitrogen fixation (nifH) grouped the novel strains of the genus Bradyrhizobium together with Bradyrhizobium iriomotense strain EK05(T), with 94% and 96% sequence similarity, respectively. Based on these data, these six strains represent a novel species for which the name Brabyrhizobium manausense sp. nov. (BR 3351(T) = HAMBI 3596(T)), is proposed.
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Affiliation(s)
- Flavia V Silva
- Departamento de Ciências, Universidade do Estado do Rio de Janeiro, Rua Dr. Francisco Portela, 1470, São Gonçalo, Rio de Janeiro 24435-000, Brazil
| | - Sofie E De Meyer
- Laboratory of Microbiology, Department of Biochemistry and Microbiology (WE10), Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium.,Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Jean L Simões-Araújo
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Tatiane da Costa Barbé
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Gustavo R Xavier
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Graham O'Hara
- Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Julie K Ardley
- Centre for Rhizobium Studies, Murdoch University, 90 South Street, Murdoch 6150, Western Australia, Australia
| | - Norma G Rumjanek
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
| | - Anne Willems
- Laboratory of Microbiology, Department of Biochemistry and Microbiology (WE10), Ghent University, K. L. Ledeganckstraat 35, B-9000 Ghent, Belgium
| | - Jerri E Zilli
- Embrapa Agrobiologia, Rodovia BR 465 km 07, Seropédica, Rio de Janeiro 23891-000, Brazil
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Cadete RM, Melo MA, Zilli JE, Vital MJS, Mouro A, Prompt AH, Gomes FCO, Stambuk BU, Lachance MA, Rosa CA. Spathaspora brasiliensis sp. nov., Spathaspora suhii sp. nov., Spathaspora roraimanensis sp. nov. and Spathaspora xylofermentans sp. nov., four novel d-xylose-fermenting yeast species from Brazilian Amazonian forest. Antonie van Leeuwenhoek 2012; 103:421-31. [DOI: 10.1007/s10482-012-9822-z] [Citation(s) in RCA: 31] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/24/2012] [Accepted: 09/21/2012] [Indexed: 10/27/2022]
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Cadete RM, Melo MA, Dussán KJ, Rodrigues RCLB, Silva SS, Zilli JE, Vital MJS, Gomes FCO, Lachance MA, Rosa CA. Diversity and physiological characterization of D-xylose-fermenting yeasts isolated from the Brazilian Amazonian Forest. PLoS One 2012; 7:e43135. [PMID: 22912807 PMCID: PMC3418277 DOI: 10.1371/journal.pone.0043135] [Citation(s) in RCA: 88] [Impact Index Per Article: 7.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/21/2012] [Accepted: 07/17/2012] [Indexed: 11/30/2022] Open
Abstract
Background This study is the first to investigate the Brazilian Amazonian Forest to identify new D-xylose-fermenting yeasts that might potentially be used in the production of ethanol from sugarcane bagasse hemicellulosic hydrolysates. Methodology/Principal Findings A total of 224 yeast strains were isolated from rotting wood samples collected in two Amazonian forest reserve sites. These samples were cultured in yeast nitrogen base (YNB)-D-xylose or YNB-xylan media. Candida tropicalis, Asterotremella humicola, Candida boidinii and Debaryomyces hansenii were the most frequently isolated yeasts. Among D-xylose-fermenting yeasts, six strains of Spathaspora passalidarum, two of Scheffersomyces stipitis, and representatives of five new species were identified. The new species included Candida amazonensis of the Scheffersomyces clade and Spathaspora sp. 1, Spathaspora sp. 2, Spathaspora sp. 3, and Candida sp. 1 of the Spathaspora clade. In fermentation assays using D-xylose (50 g/L) culture medium, S. passalidarum strains showed the highest ethanol yields (0.31 g/g to 0.37 g/g) and productivities (0.62 g/L·h to 0.75 g/L·h). Candida amazonensis exhibited a virtually complete D-xylose consumption and the highest xylitol yields (0.55 g/g to 0.59 g/g), with concentrations up to 25.2 g/L. The new Spathaspora species produced ethanol and/or xylitol in different concentrations as the main fermentation products. In sugarcane bagasse hemicellulosic fermentation assays, S. stipitis UFMG-XMD-15.2 generated the highest ethanol yield (0.34 g/g) and productivity (0.2 g/L·h), while the new species Spathaspora sp. 1 UFMG-XMD-16.2 and Spathaspora sp. 2 UFMG-XMD-23.2 were very good xylitol producers. Conclusions/Significance This study demonstrates the promise of using new D-xylose-fermenting yeast strains from the Brazilian Amazonian Forest for ethanol or xylitol production from sugarcane bagasse hemicellulosic hydrolysates.
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Affiliation(s)
- Raquel M. Cadete
- Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Monaliza A. Melo
- Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
| | - Kelly J. Dussán
- Departamento de Biotecnologia, Escola de Engenharia de Lorena, Universidade de São Paulo, São Paulo, Brazil
| | - Rita C. L. B. Rodrigues
- Departamento de Biotecnologia, Escola de Engenharia de Lorena, Universidade de São Paulo, São Paulo, Brazil
| | - Silvio S. Silva
- Departamento de Biotecnologia, Escola de Engenharia de Lorena, Universidade de São Paulo, São Paulo, Brazil
| | - Jerri E. Zilli
- Embrapa Agrobiologia, Seropédica, Rio de Janeiro, Brazil
| | - Marcos J. S. Vital
- Departamento de Biologia, Universidade Federal de Roraima, Campus do Paricarana, Boa Vista, Brazil
| | - Fátima C. O. Gomes
- Departamento de Química, Centro Federal de Educação Tecnológica de Minas Gerais, Belo Horizonte, Brazil
| | - Marc-André Lachance
- Department of Biology, University of Western Ontario, London, Ontario, Canada
| | - Carlos A. Rosa
- Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Belo Horizonte, Brazil
- * E-mail:
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Cadete RM, Melo MA, Lopes MR, Pereira GMD, Zilli JE, Vital MJS, Gomes FCO, Lachance MA, Rosa CA. Candida amazonensis sp. nov., an ascomycetous yeast isolated from rotting wood in the Amazonian forest. Int J Syst Evol Microbiol 2011; 62:1438-1440. [PMID: 21856981 DOI: 10.1099/ijs.0.036715-0] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022] Open
Abstract
Five strains of a novel yeast species were isolated from rotting wood samples collected in an Amazonian forest site in the state of Roraima, northern Brazil. The sequences of the D1/D2 domains of the large subunit of the rRNA gene showed that this species belongs to the Scheffersomyces clade and is related to Candida coipomoensis, Candida lignicola and Candida queiroziae. The novel species Candida amazonensis sp. nov. is proposed to accommodate these isolates. The type strain of C. amazonensis sp. nov. is UFMG-HMD-26.3(T) ( = CBS 12363(T) = NRRL Y-48762(T)).
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Affiliation(s)
- Raquel M Cadete
- Departamento de Microbiologia, ICB, CP 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG 31270-901, Brazil
| | - Monaliza A Melo
- Departamento de Microbiologia, ICB, CP 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG 31270-901, Brazil
| | - Mariana R Lopes
- Departamento de Microbiologia, ICB, CP 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG 31270-901, Brazil
| | - Gilmara M D Pereira
- Departamento de Biologia, Universidade Federal de Roraima - Campus do Paricarana, Boa Vista, RR 69310-270, Brazil
| | - Jerri E Zilli
- Embrapa Agrobiologia, Seropédica, Rio de Janeiro, Brazil
| | - Marcos J S Vital
- Departamento de Biologia, Universidade Federal de Roraima - Campus do Paricarana, Boa Vista, RR 69310-270, Brazil
| | - Fátima C O Gomes
- Departamento de Química, Centro Federal de Educação Tecnológica de Minas Gerais, Belo Horizonte, MG 30480-000, Brazil
| | - Marc-André Lachance
- Department of Biology, University of Western Ontario, London, Ontario, N6A 5B7, Canada
| | - Carlos A Rosa
- Departamento de Microbiologia, ICB, CP 486, Universidade Federal de Minas Gerais, Belo Horizonte, MG 31270-901, Brazil
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