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      Screening potential insect vectors in a museum biorepository reveals undiscovered diversity of plant pathogens in natural areas

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          Abstract

          Phytoplasmas ( Mollicutes, Acholeplasmataceae), vector‐borne obligate bacterial plant parasites, infect nearly 1,000 plant species and unknown numbers of insects, mainly leafhoppers (Hemiptera, Deltocephalinae), which play a key role in transmission and epidemiology. Although the plant–phytoplasma–insect association has been evolving for >300 million years, nearly all known phytoplasmas have been discovered as a result of the damage inflicted by phytoplasma diseases on crops. Few efforts have been made to study phytoplasmas occurring in noneconomically important plants in natural habitats. In this study, a subsample of leafhopper specimens preserved in a large museum biorepository was analyzed to unveil potential new associations. PCR screening for phytoplasmas performed on 227 phloem‐feeding leafhoppers collected worldwide from natural habitats revealed the presence of 6 different previously unknown phytoplasma strains. This indicates that museum collections of herbivorous insects represent a rich and largely untapped resource for discovery of new plant pathogens, that natural areas worldwide harbor a diverse but largely undiscovered diversity of phytoplasmas and potential insect vectors, and that independent epidemiological cycles occur in such habitats, posing a potential threat of disease spillover into agricultural systems. Larger‐scale future investigations will contribute to a better understanding of phytoplasma genetic diversity, insect host range, and insect‐borne phytoplasma transmission and provide an early warning for the emergence of new phytoplasma diseases across global agroecosystems.

          Abstract

          Phytoplasmas are a diverse group of obligate intracellular bacterial parasites, and diseases associated with these bacteria are among the most important problems affecting agriculture worldwide. However, most knowledge of the diversity and ecology of phytoplasmas and their hosts has been accumulated through studies of phytoplasma disease epidemiology in agroecosystems. In light of recent attention to the importance of wildlife as reservoirs of emergent diseases, we screened potential insect vectors collected in natural areas and preserved in museum biorepositories, 6 of them were positive for the presence of phytoplasmas.

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          A new approach to rapid sequence comparison, basic local alignment search tool (BLAST), directly approximates alignments that optimize a measure of local similarity, the maximal segment pair (MSP) score. Recent mathematical results on the stochastic properties of MSP scores allow an analysis of the performance of this method as well as the statistical significance of alignments it generates. The basic algorithm is simple and robust; it can be implemented in a number of ways and applied in a variety of contexts including straightforward DNA and protein sequence database searches, motif searches, gene identification searches, and in the analysis of multiple regions of similarity in long DNA sequences. In addition to its flexibility and tractability to mathematical analysis, BLAST is an order of magnitude faster than existing sequence comparison tools of comparable sensitivity.
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            MEGA7: Molecular Evolutionary Genetics Analysis Version 7.0 for Bigger Datasets.

            We present the latest version of the Molecular Evolutionary Genetics Analysis (Mega) software, which contains many sophisticated methods and tools for phylogenomics and phylomedicine. In this major upgrade, Mega has been optimized for use on 64-bit computing systems for analyzing larger datasets. Researchers can now explore and analyze tens of thousands of sequences in Mega The new version also provides an advanced wizard for building timetrees and includes a new functionality to automatically predict gene duplication events in gene family trees. The 64-bit Mega is made available in two interfaces: graphical and command line. The graphical user interface (GUI) is a native Microsoft Windows application that can also be used on Mac OS X. The command line Mega is available as native applications for Windows, Linux, and Mac OS X. They are intended for use in high-throughput and scripted analysis. Both versions are available from www.megasoftware.net free of charge.
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              MUSCLE: multiple sequence alignment with high accuracy and high throughput.

              We describe MUSCLE, a new computer program for creating multiple alignments of protein sequences. Elements of the algorithm include fast distance estimation using kmer counting, progressive alignment using a new profile function we call the log-expectation score, and refinement using tree-dependent restricted partitioning. The speed and accuracy of MUSCLE are compared with T-Coffee, MAFFT and CLUSTALW on four test sets of reference alignments: BAliBASE, SABmark, SMART and a new benchmark, PREFAB. MUSCLE achieves the highest, or joint highest, rank in accuracy on each of these sets. Without refinement, MUSCLE achieves average accuracy statistically indistinguishable from T-Coffee and MAFFT, and is the fastest of the tested methods for large numbers of sequences, aligning 5000 sequences of average length 350 in 7 min on a current desktop computer. The MUSCLE program, source code and PREFAB test data are freely available at http://www.drive5. com/muscle.
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                Author and article information

                Contributors
                valeria.trivellone@gmail.com
                Journal
                Ecol Evol
                Ecol Evol
                10.1002/(ISSN)2045-7758
                ECE3
                Ecology and Evolution
                John Wiley and Sons Inc. (Hoboken )
                2045-7758
                01 May 2021
                June 2021
                : 11
                : 11 ( doiID: 10.1002/ece3.v11.11 )
                : 6493-6503
                Affiliations
                [ 1 ] Illinois Natural History Survey Prairie Research Institute University of Illinois Champaign IL USA
                [ 2 ] Molecular Plant Pathology Laboratory Beltsville Agricultural Research Center Agricultural Research Service United States Department of Agriculture Beltsville MD USA
                [ 3 ] CREA–VE Council for Agricultural Research and Economics Research Centre for Viticulture and Enology Conegliano, Treviso Italy
                Author notes
                [*] [* ] Correspondence

                Valeria Trivellone, Illinois Natural History Survey, Prairie Research Institute, University of Illinois, Champaign, IL, USA.

                Email: valeria.trivellone@ 123456gmail.com

                Author information
                https://orcid.org/0000-0003-1415-4097
                Article
                ECE37502
                10.1002/ece3.7502
                8207438
                34141234
                0f39235a-ecf5-4dc0-8f58-2ff0b07b0f10
                © 2021 The Authors. Ecology and Evolution published by John Wiley & Sons Ltd.

                This is an open access article under the terms of the http://creativecommons.org/licenses/by/4.0/ License, which permits use, distribution and reproduction in any medium, provided the original work is properly cited.

                History
                : 12 March 2021
                : 16 February 2021
                : 15 March 2021
                Page count
                Figures: 4, Tables: 1, Pages: 11, Words: 8457
                Funding
                Funded by: US Department of Agriculture, Agricultural Research Service , open-funder-registry 10.13039/100007917;
                Award ID: 8042‐22000‐306‐00D
                Funded by: National Science Foundation , open-funder-registry 10.13039/100000001;
                Award ID: DEB‐1639601
                Funded by: Swiss National Science Foundation , open-funder-registry 10.13039/501100001711;
                Award ID: P2NEP3_168526
                Categories
                Original Research
                Original Research
                Custom metadata
                2.0
                June 2021
                Converter:WILEY_ML3GV2_TO_JATSPMC version:6.0.2 mode:remove_FC converted:16.06.2021

                Evolutionary Biology
                coevolution,emerging disease,leafhoppers,phytoplasma,vector‐borne pathogens
                Evolutionary Biology
                coevolution, emerging disease, leafhoppers, phytoplasma, vector‐borne pathogens

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