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      Susceptibility of fig cultivars to Diaporthe canker in Iran

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          Abstract

          Fig canker is a serious concern in the major fig‐growing region of Iran, Fars Province. The disease reduces yield and the lifespan of fig trees, particularly the dominant commercial dried fig cultivar, Sabz. Four consecutive years of surveys (2019–2022) led to the identification of four distinct canker types (A–D) in infected fig orchards in southern Iran. Morphological identification and multiple gene phylogenetic analyses indicated that 218 (>66% of the total) isolates from infected fig cultivars belonged to Diaporthe cinerascens, all of which were recovered from Type A cankers, that is, trunk cankers with zonation. Based on scales developed by the principal component analysis (PCA) approach of pathogenicity characteristics, D. cinerascens isolates were clustered into three groups: low, moderate and highly aggressive. The susceptibility of 10 drought and/or salinity‐tolerant fig cultivars to a highly aggressive D. cinerascens isolate was evaluated based on five pathogenicity characteristics. These cultivars were clustered into nonsusceptible (cultivar Matti), semisusceptible (the majority of the cultivars) and susceptible (cultivars Dehdez and Gilasi). The present study is the first attempt to assess the response of fig cultivars to the most significant and common pathogen causing fig canker, D. cinerascens, by phenotyping techniques.

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          The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools.

          CLUSTAL X is a new windows interface for the widely-used progressive multiple sequence alignment program CLUSTAL W. The new system is easy to use, providing an integrated system for performing multiple sequence and profile alignments and analysing the results. CLUSTAL X displays the sequence alignment in a window on the screen. A versatile sequence colouring scheme allows the user to highlight conserved features in the alignment. Pull-down menus provide all the options required for traditional multiple sequence and profile alignment. New features include: the ability to cut-and-paste sequences to change the order of the alignment, selection of a subset of the sequences to be realigned, and selection of a sub-range of the alignment to be realigned and inserted back into the original alignment. Alignment quality analysis can be performed and low-scoring segments or exceptional residues can be highlighted. Quality analysis and realignment of selected residue ranges provide the user with a powerful tool to improve and refine difficult alignments and to trap errors in input sequences. CLUSTAL X has been compiled on SUN Solaris, IRIX5.3 on Silicon Graphics, Digital UNIX on DECstations, Microsoft Windows (32 bit) for PCs, Linux ELF for x86 PCs, and Macintosh PowerMac.
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            Two divergent intragenomic rDNA ITS2 types within a monophyletic lineage of the fungus Fusarium are nonorthologous.

            The evolutionary history of the phytopathogenic Gibberella fujikuroi complex of Fusarium and related species was investigated by cladistic analysis of DNA sequences obtained from multiple unlinked loci. Gene phylogenies inferred from the mitochondrial small subunit (mtSSU) rDNA, nuclear 28S rDNA, and beta-tubulin gene were generally concordant, providing strong support for a fully resolved phylogeny of all biological and most morphological species. Discordance of the nuclear rDNA internal transcribed spacer 2 (ITS2) gene tree is due to paralogous or xenologous ITS2 sequences. PCR and sequence analysis demonstrated that every strain of the ingroup species tested possesses two highly divergent nonorthologous ITS2 types designated type I and type II. Only the major ITS2 type, however, is discernable when PCR products are amplified and sequenced directly with conserved primers. The minor ITS2 type was recovered using ITS2 type-specific PCR primers. Distribution of the major ITS2 type within the species lineages exhibits a homoplastic pattern of evolution, thus obscuring true phylogenetic relationships. The results suggest that the ancestral ITS2 types may have arisen following an ancient interspecific hybridization or gene duplication which occurred prior to the evolutionary radiation of the Gibberella fujikuroi complex and related species of Fusarium. The results also indicate that current morphological-based taxonomic schemes for these fungi are unnatural and a new classification is required.
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              Development of primer sets designed for use with the PCR to amplify conserved genes from filamentous ascomycetes.

              We constructed nine sets of oligonucleotide primers on the basis of the results of DNA hybridization of cloned genes from Neurospora crassa and Aspergillus nidulans to the genomes of select filamentous ascomycetes and deuteromycetes (with filamentous ascomycete affiliations). Nine sets of primers were designed to amplify segments of DNA that span one or more introns in conserved genes. PCR DNA amplification with the nine primer sets with genomic DNA from ascomycetes, deuteromycetes, basidiomycetes, and plants revealed that five of the primer sets amplified a product only from DNA of the filamentous ascomycetes and deuteromycetes. The five primer sets were constructed from the N. crassa genes for histone 3, histone 4, beta-tubulin, and the plasma membrane ATPase. With these five primer sets, polymorphisms were observed in both the size of and restriction enzyme sites in the amplified products from the filamentous ascomycetes. The primer sets described here may provide useful tools for phylogenetic studies and genome analyses in filamentous ascomycetes and deuteromycetes (with ascomycete affiliations), as well as for the rapid differentiation of fungal species by PCR.
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                Author and article information

                Contributors
                (View ORCID Profile)
                Journal
                Plant Pathology
                Plant Pathology
                Wiley
                0032-0862
                1365-3059
                April 2023
                December 09 2022
                April 2023
                : 72
                : 3
                : 507-520
                Affiliations
                [1 ] Department of Plant Protection School of Agriculture, Shiraz University Shiraz Iran
                [2 ] Fig Research Station, Fars Agricultural and Natural Resources Research and Education Center Agricultural Research, Education and Extension Organization (AREEO) Estahban Iran
                [3 ] Horticultural Sciences Department University of Florida Gainesville Florida USA
                Article
                10.1111/ppa.13687
                8c8fff63-cc8d-4793-8ab3-dc1b120d927b
                © 2023

                http://onlinelibrary.wiley.com/termsAndConditions#vor

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