scholarly journals Genomic sequencing of the aquatic Fusarium spp. QHM and BWC1 and their potential application in environmental protection

2019 ◽  
Author(s):  
Hongfei Zhu ◽  
Long Zhu ◽  
Ning Ding
Keyword(s):  
Environmental Protection ◽  
Species Complex ◽  
Efflux Pump ◽  
Environmental Control ◽  
Gene Annotation ◽  
Fusarium Fujikuroi ◽  
Fusarium Subglutinans ◽  
Illumina Hiseq ◽  
Aquatic Community ◽  
Wide Ph Range

ABSTRACTFusarium species are distributed widely in ecosystems of a wide pH range and play a pivotal role in the aquatic community through the degradation of xenobiotic compounds and secretion of secondary metabolites. The elucidation of their genome would therefore be highly impactful with regard to the control of environmental pollution. Therefore, in this study, two indigenous strains of aquatic Fusarium, QHM and BWC1, were isolated from a coal mine pit and a subterranean river respectively, cultured under acidic conditions, and sequenced. Phylogenetic analysis of these two isolates was conducted based on the sequences of internal transcript (ITS1 and ITS4) and encoding β-microtubulin (TUB2), translation elongation factors (TEFs) and the second large sub-unit of RNA polymerase (RPB2). Fusarium, QHM could potentially represent a new species within the Fusarium fujikuroi species complex. Fusarium BWC1 were found to form a clade with Fusarium subglutinans NRRL 22016, and predicted to be Fusarium subglutinans. Shot-gun sequencing on the Illumina Hiseq×10 Platform was used to elucidate the draft genomes of the two species. Gene annotation and functional analyses revealed that they had bio-degradation pathways for aromatic compounds; further, their main pathogenic mechanism was found to be the efflux pump. To date, the genomes of only a limited number of acidic species from the Fusarium fujikuroi species complex, especially from the aquatic species, have been sequenced. Therefore, the present findings are novel and have important potential for the future in terms of environmental control.IMPORTANCEFusarium genus has over 300 species and were distributed in a variety of ecosystem. Increasing attention has been drawn to Fusarium due to the importance in aquatic community, pathogenicity and environmental protection. The genomes of the strains in this work isolated in acidic condition, were sequenced. The analysis has indicated that the isolates were able to biodegrade xenobiotics, which makes it potentially function as environmental bio-agent for aromatic pollution control and remediation. Meanwhile, the virulence and pathogenicity were also predicted for reference of infection control. The genome information may lay foundation for the fungal identification, disease prevention resulting from these isolates and other “-omics” research. The isolates were phylogenetically classified into Fusarium fujikuroi species complex by means of concatenated gene analysis, serving as new addition to the big complex.

Production of Galactose Oxidase Inside the Fusarium fujikuroi Species Complex and Recombinant Expression and Characterization of the Galactose Oxidase GaoA Protein from Fusarium subglutinans

2019 ◽  
Vol 61 (9) ◽  
pp. 633-649 ◽  
Author(s):  
Carla Bertechini Faria ◽  
Fausto Fernandes de Castro ◽  
Damaris Batistão Martim ◽  
Camila Agnes Lumi Abe ◽  
Kelly Valério Prates ◽  
...  
Keyword(s):  
Species Complex ◽  
Recombinant Expression ◽  
Galactose Oxidase ◽  
Fusarium Fujikuroi ◽  
Fusarium Subglutinans ◽  
Fusarium Fujikuroi Species Complex

Efflux pump inhibition controls growth and enhances antifungal susceptibility of Fusarium solani species complex

2020 ◽  
Vol 15 (1) ◽  
pp. 9-20
Author(s):  
Rossana de A Cordeiro ◽  
Fernando VM Portela ◽  
Lívia MG Pereira ◽  
Ana RC de Andrade ◽  
José K de Sousa ◽  
...  
Keyword(s):  
Fusarium Solani ◽  
Species Complex ◽  
Efflux Pump ◽  
Antifungal Susceptibility ◽  
Indirect Evidence ◽  
Efflux Pumps ◽  
Fusarium Solani Species Complex ◽  
Efflux Pump Inhibition ◽  
Pump Activity ◽  
Increased Sensitivity

Aim: To evaluate the inhibition of efflux pumps by using promethazine (PMZ) as a strategy to control Fusarium solani species complex (FSSC). Materials & methods: The susceptibility of FSSC strains to PMZ and the interaction between PMZ and antifungals were evaluated. The efflux pump activity was confirmed by flow cytometry with rhodamine 6G. Finally, PMZ was tested against FSSC biofilms. Results: PMZ inhibited FSSC planktonic growth and showed synergism with antifungals. PMZ reduced R6G efflux and inhibited cell adhesion, impaired the development of biofilms and disrupted mature biofilms. PMZ-challenged biofilms showed increased sensitivity to amphotericin B. Conclusion: The study provides indirect evidence of the occurrence of efflux pumps in FSSC and opens a perspective for this target in the control of fusariosis.

scholarly journals Characterization of the transcriptome and EST-SSR development in Boea clarkeana, a desiccation-tolerant plant endemic to China

2016 ◽  
Author(s):  
Ying Wang ◽  
Kun Liu ◽  
De Bi ◽  
Biao Shou Zhou ◽  
Wen Jian Shao
Keyword(s):  
De Novo ◽  
Gene Annotation ◽  
Sequence Similarity ◽  
Molecular Study ◽  
Sequence Information ◽  
Sequencing Data ◽  
Protein Database ◽  
Illumina Hiseq ◽  
Significant Similarity ◽  
Assembly Technology

Background. Resurrection plants constitute a unique cadre within angiosperms. Boea clarkeana Hemsl. (Boea, Gesneriaceae) is a desiccation-tolerant dicotyledonous herb that is endemic to China. Although research on angiosperms with DT could be instructive for crops, genomic resources for B. clarkeana remain scarce. In addition, transcriptome sequencing could be an effective way to study desiccation-tolerant plants. Methods. In the present study, we used the platform Illumina HiSeqTM 2000 and de novo assembly technology to obtain leaf transcriptomes of B. clarkeana and conducted a BLASTX alignment of the sequencing data and protein databases for sequence classification and annotation. Then, based on the sequence information obtained, we developed EST-SSR markers by means of EST-SSR mining, primer design and polymorphism identification. Results. A total of 91,449 unigenes were generated from the leaf cDNA library of B. clarkeana in this study. Based on a sequence similarity search with a known protein database, 72,087 unigenes were annotated. Among the annotated unigenes, a total of 71,170 unigenes showed significant similarity to known proteins of 463 popular model species in the Nr database, and 59,962 unigenes and 32,336 unigenes were assigned to GO classifications and COG, respectively. In addition, 44,924 unigenes were mapped in 128 KEGG pathways. Furthermore, a total of 7,610 unigenes with 8,563 microsatellites were found. Seventy-four primer pairs were selected from 436 primer pairs designed for polymorphism validation. SSRs with higher polymorphism rates were concentrated on dinucleotides, pentanucleotides and hexanucleotides. Finally, 17 pairs with highly polymorphic and stable loci were selected for polymorphism screening. There were a total of 65 alleles, with 2–6 alleles at each locus. Mainly due to the unique biological characteristics of plants, the HE, HO and PIC per locus were very low, ranging from 0 to 0.196, 0.082 to 0.14 and 0 to 0.155, respectively. Discussion. A substantial fraction transcriptome sequences of B. clarkeana were generated in this study, which is the first molecular-level analysis of this plant. These sequences are valuable resources for gene annotation and discovery and molecular marker development. These sequences could also provide a valuable basis for the future molecular study of B. clarkeana.

scholarly journals Fusarium musae from Diseased Bananas and Human Patients: Susceptibility to Fungicides Used in Clinical and Agricultural Settings

2021 ◽  
Vol 7 (9) ◽  
pp. 784
Author(s):  
Valeria Tava ◽  
Anna Prigitano ◽  
Paolo Cortesi ◽  
Maria Carmela Esposto ◽  
Matias Pasquali
Keyword(s):  
Species Complex ◽  
Crown Rot ◽  
Fusarium Fujikuroi ◽  
Clinical Settings ◽  
Skin Infections ◽  
Minimal Inhibitory Concentrations ◽  
Worldwide Population ◽  
Fusarium Fujikuroi Species Complex ◽  
Rot Disease ◽  
Systemic Infections

Fusarium musae belongs to the Fusarium fujikuroi species complex. It causes crown rot disease in banana but also keratitis and skin infections as well as systemic infections in immunocompromised patients. Antifungal treatments in clinical and agricultural settings rely mostly on molecules belonging to the azole class. Given the potential risk of pathogen spread from food to clinical settings, the goal of the work was to define the level of susceptibility to different azoles of a worldwide population of F. musae. Eight fungicides used in agriculture and five antifungals used in clinical settings (4 azoles and amphotericin B) were tested using the CLSI (Clinical and Laboratory Standards Institute) protocol methodology on 19 F. musae strains collected from both infected patients and bananas. The level of susceptibility to the different active molecules was not dependent on the source of isolation with the exception of fenbuconazole and difenoconazole which had a higher efficiency on banana-isolated strains. Minimal inhibitory concentrations (MICs) of the different molecules ranged from 0.12–0.25 mg/L for prochloraz to more than 16 mg/L for tetraconazole and fenbuconazole. Compared to the F. verticillioides, F. musae MICs were higher suggesting the importance of monitoring the potential future spread of this species also in clinical settings.

scholarly journals Fusarium fujikuroi species complex in Brazilian rice: unveiling increased phylogenetic diversity and toxigenic potential

2020 ◽  
Author(s):  
Camila Primieri Nicolli ◽  
Miriam Haidukowskic ◽  
Antonia Susca ◽  
Larissa Bitencourt Gomes ◽  
Antonio Logrieco ◽  
...  
Keyword(s):  
Geographical Distribution ◽  
Species Complex ◽  
Phylogenetic Diversity ◽  
The Other ◽  
Fusarium Fujikuroi ◽  
Phylogenetic Species ◽  
Frequent Species ◽  
New Knowledge ◽  
Fusarium Sp ◽  
Fusarium Fujikuroi Species Complex

Fusarium fujikuroi species complex (FFSC) species are commonly encountered infecting rice, but knowledge of the diversity and toxigenic potential of the species is lacking in Brazil, the largest rice-producing country outside Asia. One hundred FFSC isolates obtained from national rice were identified using morphology and phylogeny of TEF, CAL and TUB genes. Eight previously known and one new phylogenetic species were identified. Three species accounted for around 60% of the strains: F. fujikuroi (n = 23), F. proliferatum (n = 22) and F. verticillioides (n = 16). The less frequent species were F. volatile (n = 8), F. anthophilum (n = 6), F. pseudocircinatum (n = 4), F. sterilihyphosum (n = 2) and F. begoniae (n = 1). The new Fusarium sp. was represented by 18 isolates. All species produced at least one of the analyzed mycotoxins [beauvericin (BEA), fumonisins (FBs), moniliformin (MON) and enniatins (ENNs)]. BEA was produced by all species but F. verticillioides. The FBs (mainly FB1) were produced mostly by F. fujikuroi, F. proliferatum and F. verticillioides. F. begoniae and F. verticillioides did not produce ENNs and F. sterilihyphosum and F. begoniae did no produce MON, while the other species produced MON and ENNs. Our results contribute new knowledge of the diversity, geographical distribution and hosts of FFSC species.

scholarly journals Keragaman Cendawan Pascapanen pada Umbi Bawang Merah Varietas Bima Brebes

2019 ◽  
Vol 14 (5) ◽  
pp. 175
Author(s):  
Okky Setyawati Dharmaputra ◽  
Sri Listiyowati ◽  
Ira Zahara Nurwulansari
Keyword(s):  
Species Complex ◽  
Pathogenic Fungi ◽  
Colony Growth ◽  
Fusarium Fujikuroi ◽  
Molecular Characteristics ◽  
Hot Pepper ◽  
Pathogenicity Test ◽  
Fungal Isolation ◽  
Fungi Infection ◽  
Colletotrichum Gloeosporioides Species Complex

Diversity of Postharvest Fungi on Shallot Bulbs Variety Bima BrebesIn Indonesia, shallot (Allium ascalonicum) is horticultural main commodity after hot pepper. Significant yield losses can be caused by postharvest fungi infection. Research on the diversity of postharvest fungi on shallot bulbs has been conducted in some countries, unfortunately little is done in Indonesia. The study was aimed to obtain information on the diversity of postharvest fungi infecting shallot bulbs variety Bima Brebes from several traditional markets in Bogor City. Shallot bulbs were collected in January and February 2016. The study consisted of fungal isolation from shallot bulbs, fungal pathogenicity test, and identification of pathogenic fungi based on morphological and molecular characteristics. Morphology identification was based on the color of fungal colony, growth pattern, as well as somatic and reproduction structures. Several species of pathogenic fungi were successfully identified from shallot bulbs i.e. Alternaria alternata, Aspergillus niger, Colletotrichum gloeosporioides species complex, Fusarium fujikuroi species complex, F. oxysporum, F. solani, Penicillium citrinum and P. pinophilum.  Among these fungi, the highest pathogenicity was shown by C.  gloeosporioides species complex.

scholarly journals Ecological state of the urban environment as an object of forensic analysis within the period of introducing the judicial reform of Russia

2018 ◽  
Vol 170 ◽  
pp. 01057 ◽  
Author(s):  
Elena Voskresenskaya ◽  
Dmitry Mokhorov ◽  
Alexander Tebryaev
Keyword(s):  
Environmental Protection ◽  
Urban Environment ◽  
Urban Areas ◽  
Environmental Control ◽  
Forensic Analysis ◽  
National Standard ◽  
Scientific Article ◽  
Judicial Reform ◽  
Ecological State ◽  
The Government

For today, environmental protection is one of the most serious issues for the government. The urban environment is exposed to numerous negative natural and anthropogenic processes. The scientific article considers the main problems of forensic analysis of the ecological state of the urban environment. Reduction in the scope of environmental expertise caused by urban development reformation became the negative matter. The authors believe that the forensic analysis is an important legal instrument for ensuring rational environmental resources management and environmental protection from harmful impacts on urban areas. Along with rationing, licensing, certification, audit, the forensic analysis performs the function of environmental control, acting as a guarantor of compliance with legal requirements. In order to integrate new kinds (types) of forensic analysis into a unified list of kinds (types) of analysis and to regulate the existing lists, the adoption of the National Standard on Forensic Ecological Expert Analysis is demanded; however, the adoption of a unified National Standard of the Russian Federation on forensic analysis is also required.

Design and validation of a robust multiplex polymerase chain reaction assay for MAT idiomorph within the Fusarium fujikuroi species complex

Mycologia ◽  
2019 ◽  
Vol 111 (5) ◽  
pp. 772-781 ◽  
Author(s):  
Amelia C. Montoya-Martínez ◽  
Gerardo Rodríguez-Alvarado ◽  
Sylvia P. Fernández-Pavía ◽  
Robert H. Proctor ◽  
Hye-Seon Kim ◽  
...  
Keyword(s):  
Polymerase Chain Reaction ◽  
Polymerase Chain Reaction Assay ◽  
Multiplex Polymerase Chain Reaction ◽  
Species Complex ◽  
Fusarium Fujikuroi ◽  
Chain Reaction ◽  
Fusarium Fujikuroi Species Complex ◽  
Polymerase Chain

scholarly journals Fusarium udum revisited: a common, but poorly understood member of the Fusarium fujikuroi species complex

2018 ◽  
Vol 18 (1-2) ◽  
pp. 107-117 ◽  
Author(s):  
Ludwig H. Pfenning ◽  
Maruzanete Pereira de Melo ◽  
Marileide Moreira Costa ◽  
Ailton Reis ◽  
Cleia Santos Cabral ◽  
...  
Keyword(s):  
Species Complex ◽  
Fusarium Fujikuroi ◽  
Fusarium Udum ◽  
Fusarium Fujikuroi Species Complex
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