One’s trash is someone else’s treasure: sequence read archives from Lepidoptera genomes provide material for genome reconstruction of their endosymbionts View Full Text


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Article Info

DATE

2022-08-30

AUTHORS

Victoria G. Twort, Daniel Blande, Anne Duplouy

ABSTRACT

BackgroundMaternally inherited bacterial symbionts are extremely widespread in insects. They owe their success to their ability to promote their own transmission through various manipulations of their hosts’ life-histories. Many symbionts however very often go undetected. Consequently, we have only a restricted idea of the true symbiont diversity in insects, which may hinder our understanding of even bigger questions in the field such as the evolution or establishment of symbiosis.ResultsIn this study, we screened publicly available Lepidoptera genomic material for two of the most common insect endosymbionts, namely Wolbachia and Spiroplasma, in 1904 entries, encompassing 106 distinct species. We compared the performance of two screening software, Kraken2 and MetaPhlAn2, to identify the bacterial infections and using a baiting approach we reconstruct endosymbiont genome assemblies. Of the 106 species screened, 20 (19%) and nine (8.5%) were found to be infected with either Wolbachia or Spiroplasma, respectively. Construction of partial symbiotic genomes and phylogenetic analyses suggested the Wolbachia strains from the supergroup B were the most prevalent type of symbionts, while Spiroplasma infections were scarce in the Lepidoptera species screened here.ConclusionsOur results indicate that many of the host-symbiont associations remain largely unexplored, with the majority of associations we identify never being recorded before. This highlights the usefulness of public databases to explore the hidden diversity of symbiotic entities, allowing the development of hypotheses regarding host-symbiont associations. The ever-expanding genomic databases provide a diverse databank from which one can characterize and explore the true diversity of symbiotic entities. More... »

PAGES

209

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  • Identifiers

    URI

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    36 schema:description BackgroundMaternally inherited bacterial symbionts are extremely widespread in insects. They owe their success to their ability to promote their own transmission through various manipulations of their hosts’ life-histories. Many symbionts however very often go undetected. Consequently, we have only a restricted idea of the true symbiont diversity in insects, which may hinder our understanding of even bigger questions in the field such as the evolution or establishment of symbiosis.ResultsIn this study, we screened publicly available Lepidoptera genomic material for two of the most common insect endosymbionts, namely Wolbachia and Spiroplasma, in 1904 entries, encompassing 106 distinct species. We compared the performance of two screening software, Kraken2 and MetaPhlAn2, to identify the bacterial infections and using a baiting approach we reconstruct endosymbiont genome assemblies. Of the 106 species screened, 20 (19%) and nine (8.5%) were found to be infected with either Wolbachia or Spiroplasma, respectively. Construction of partial symbiotic genomes and phylogenetic analyses suggested the Wolbachia strains from the supergroup B were the most prevalent type of symbionts, while Spiroplasma infections were scarce in the Lepidoptera species screened here.ConclusionsOur results indicate that many of the host-symbiont associations remain largely unexplored, with the majority of associations we identify never being recorded before. This highlights the usefulness of public databases to explore the hidden diversity of symbiotic entities, allowing the development of hypotheses regarding host-symbiont associations. The ever-expanding genomic databases provide a diverse databank from which one can characterize and explore the true diversity of symbiotic entities.
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    42 schema:keywords ConclusionsOur results
    43 Kraken2
    44 Lepidoptera
    45 ResultsIn
    46 Spiroplasma
    47 Spiroplasma infection
    48 Wolbachia
    49 ability
    50 analysis
    51 approach
    52 archives
    53 assembly
    54 association
    55 bacterial infections
    56 bacterial symbionts
    57 big question
    58 construction
    59 databank
    60 database
    61 development
    62 development of hypotheses
    63 distinct species
    64 diversity
    65 endosymbionts
    66 entities
    67 entry
    68 establishment
    69 establishment of symbiosis
    70 evolution
    71 field
    72 genome
    73 genome assembly
    74 genome reconstruction
    75 genomic databases
    76 genomic material
    77 hidden diversity
    78 host
    79 host-symbiont associations
    80 hypothesis
    81 idea
    82 infection
    83 insect endosymbionts
    84 insects
    85 lepidopteran species
    86 majority
    87 majority of associations
    88 manipulation
    89 materials
    90 one
    91 own transmission
    92 performance
    93 phylogenetic analysis
    94 prevalent type
    95 public databases
    96 questions
    97 reconstruction
    98 results
    99 screening software
    100 sequence
    101 software
    102 species
    103 study
    104 success
    105 supergroup B
    106 symbiont diversity
    107 symbionts
    108 symbiosis
    109 symbiotic entity
    110 symbiotic genomes
    111 transmission
    112 trash
    113 treasure
    114 true diversity
    115 types
    116 understanding
    117 usefulness
    118 schema:name One’s trash is someone else’s treasure: sequence read archives from Lepidoptera genomes provide material for genome reconstruction of their endosymbionts
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