Microbiome Differences between Human Head and Body Lice Ecotypes Revealed by 16S rRNA Gene Amplicon Sequencing

Agany, Diing D.M.; Potts, Rashaun; Gonzalez-Hernandez, Jose L.; Gnimpieba, Etienne Z.; Pietri, Jose E.

doi:10.1645/19-132

Cited by 7 publications

(3 citation statements)

References 57 publications

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“…Nonetheless, several aspects of the variation of animal microbiomes are yet to be better understood (Lim and Bordenstein, 2020). In particular, for non-human animals, there is still much to learn about how microbiomes vary at scales below the species level, such as between populations (Blekhman et al, 2015;Kohl et al, 2018;Rothschild et al, 2018;Campbell et al, 2020;Fountain-Jones et al, 2020) or ecotypes (Agany et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

Patterns of Microbiome Variation Among Infrapopulations of Permanent Bloodsucking Parasites

et al. 2021

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While interspecific variation in microbiome composition can often be readily explained by factors such as host species identity, there is still limited knowledge of how microbiomes vary at scales lower than the species level (e.g., between individuals or populations). Here, we evaluated variation in microbiome composition of individual parasites among infrapopulations (i.e., populations of parasites of the same species living on a single host individual). To address this question, we used genome-resolved and shotgun metagenomic data of 17 infrapopulations (balanced design) of the permanent, bloodsucking seal louse Echinophthirius horridus sampled from individual Saimaa ringed seals Pusa hispida saimensis. Both genome-resolved and read-based metagenomic classification approaches consistently show that parasite infrapopulation identity is a significant factor that explains both qualitative and quantitative patterns of microbiome variation at the intraspecific level. This study contributes to the general understanding of the factors driving patterns of intraspecific variation in microbiome composition, especially of bloodsucking parasites, and has implications for understanding how well-known processes occurring at higher taxonomic levels, such as phylosymbiosis, might arise in these systems.

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Section: Introductionmentioning

confidence: 99%

Patterns of Microbiome Variation Among Infrapopulations of Permanent Bloodsucking Parasites

et al. 2021

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“…pacificus . Estimation of microbiome richness using 16S rRNA NGS extends far beyond this species of tick, and far beyond ticks, to include other microecosystems that vary from those of low richness (lice in Agany et al, 2020, fleas in Vasconcelos et al, 2018, mosquitos in Muturi et al, 2017) to those of very high richness (soil in Canfora et al, 2018, houseflies in Bahrndorff et al, 2020).…”

Section: Discussionmentioning

confidence: 99%

Rigorous quantification of bacterial richness in ticks: A case study

Holmes

2021

Molecular Ecology

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Kwan et al. (2017) published an informative study comparing results obtained by next‐generation sequencing (NGS) of mean bacterial genera richness among different life stages, male and female adults, and rearing conditions (field vs. laboratory) for Ixodes pacificus. The current paper examines Kwan et al. (2017) as a case study to provide guidance on statistical design and analysis for estimation of richness, derived from next generation sequencing technology, of the bacterial microbiome in field‐collected I. pacificus. Suggestions are provided to further strengthen quantification of microbiome richness in studies in ticks, with focus on sampling design. In‐depth treatment is provided of the relative merits of estimating mean richness versus median richness. Research on microbiome diversity in ticks can be made quantitatively rigorous; although, more research on methods is needed.

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“…Nonetheless, several aspects of the variation of animal microbiomes are yet to be better understood (Lim and Bordenstein 2020). In particular, for non-human animals, there is still much to learn about how microbiomes vary at scales below the species level, such as between populations (Blekhman et al 2015;Kohl et al 2018;Rothschild et al 2018;Campbell et al 2020;Fountain"Jones et al 2020) or ecotypes (Agany et al 2020).…”

Section: Introductionmentioning

confidence: 99%

Patterns of microbiome variation among infrapopulations of permanent bloodsucking parasites

Doña

Herrera

Nyman

et al. 2020

Preprint

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While interspecific variation in microbiome composition can often be readily explained by factors such as host species identity, there is still limited knowledge of how microbiomes vary at scales lower than the species level (e.g., between individuals or populations). Here, we evaluated variation in microbiome composition of individual parasites among infrapopulations (i.e., populations of parasites of the same species living on a single host individual). To address this question, we used genome-resolved and shotgun metagenomic data of 17 infrapopulations (balanced design) of the permanent, bloodsucking seal louse Echinophthirius horridus sampled from individual Saimaa ringed seals Pusa hispida saimensis. Both genome-resolved metagenomic and metagenomic classification approaches consistently show that parasite infrapopulation identity is a significant factor that explains both qualitative and quantitative patterns of microbiome variation at the intraspecific level. This study contributes to the general understanding of the factors driving patterns of intraspecific variation in microbiome composition, especially of bloodsucking parasites, and has implications for understanding how well-known processes occurring at higher taxonomic levels, such as phylosymbiosis, might arise in these systems.

show abstract

Microbiome Differences between Human Head and Body Lice Ecotypes Revealed by 16S rRNA Gene Amplicon Sequencing

Cited by 7 publications

References 57 publications

Patterns of Microbiome Variation Among Infrapopulations of Permanent Bloodsucking Parasites

Patterns of Microbiome Variation Among Infrapopulations of Permanent Bloodsucking Parasites

Rigorous quantification of bacterial richness in ticks: A case study

Patterns of microbiome variation among infrapopulations of permanent bloodsucking parasites

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