ELAV Intron 8: a single-copy sequence marker for shallow to deep phylogeny in Eupulmonata Hasprunar & Huber, 1990 and Hygrophila Ferussac, 1822 (Gastropoda: Mollusca)

Kód výsledku v IS VaVaI

<a href="https://www.isvavai.cz/riv?ss=detail&h=RIV%2F00216224%3A14310%2F23%3A00134096" target="_blank" >RIV/00216224:14310/23:00134096 - isvavai.cz</a>

Výsledek na webu

<a href="https://doi.org/10.1007/s13127-022-00587-3" target="_blank" >https://doi.org/10.1007/s13127-022-00587-3</a>

DOI - Digital Object Identifier

<a href="http://dx.doi.org/10.1007/s13127-022-00587-3" target="_blank" >10.1007/s13127-022-00587-3</a>

Jazyk výsledku

angličtina

Název v původním jazyce

ELAV Intron 8: a single-copy sequence marker for shallow to deep phylogeny in Eupulmonata Hasprunar & Huber, 1990 and Hygrophila Ferussac, 1822 (Gastropoda: Mollusca)

Popis výsledku v původním jazyce

Progress in eupulmonate gastropod taxonomy is limited by absence of single- or low-copy nuclear DNA markers that provide species-scale insights. We detail here the single-copy intron 8 of the embryonic lethality and abnormal visual system gene (ELAVI8). High sequence conservation within flanking exons 8 and 9 allowed design of non-redundant primers that enable PCR amplification across a broad phylogenetic extent. Across the Eupulmonata and Hygrophila ELAVI8 product ranged from 602 to 802 base pairs in length. A multiple sequence alignment across 62 taxa, representing 36 genera and 12 major clades, showed 1296 sites with 865 variable positions. Typically, 2-10 base pair differences were noted between closely related species within a genus, with 74-200 bases differing between major infra-order clades. ELAVI8 maximum-likelihood trees showed essentially identical topologies at high levels of support compared to those created from concatenated ITS1 + 2 (within a genus) or 28S (across Eupulmonata and Hygrophila). ELAVI8 is superior to these two phylogenetic marker regions, however, because it (1) resolves phylogenetic pattern from species- to sub-cohort scales in a single amplicon, (2) was better able to resolve family- and deeper-clades at high support, (3) allows for outgroup rooting between genera, and (4) possesses no intercopy haplotype variability.

Název v anglickém jazyce

ELAV Intron 8: a single-copy sequence marker for shallow to deep phylogeny in Eupulmonata Hasprunar & Huber, 1990 and Hygrophila Ferussac, 1822 (Gastropoda: Mollusca)

Popis výsledku anglicky

Progress in eupulmonate gastropod taxonomy is limited by absence of single- or low-copy nuclear DNA markers that provide species-scale insights. We detail here the single-copy intron 8 of the embryonic lethality and abnormal visual system gene (ELAVI8). High sequence conservation within flanking exons 8 and 9 allowed design of non-redundant primers that enable PCR amplification across a broad phylogenetic extent. Across the Eupulmonata and Hygrophila ELAVI8 product ranged from 602 to 802 base pairs in length. A multiple sequence alignment across 62 taxa, representing 36 genera and 12 major clades, showed 1296 sites with 865 variable positions. Typically, 2-10 base pair differences were noted between closely related species within a genus, with 74-200 bases differing between major infra-order clades. ELAVI8 maximum-likelihood trees showed essentially identical topologies at high levels of support compared to those created from concatenated ITS1 + 2 (within a genus) or 28S (across Eupulmonata and Hygrophila). ELAVI8 is superior to these two phylogenetic marker regions, however, because it (1) resolves phylogenetic pattern from species- to sub-cohort scales in a single amplicon, (2) was better able to resolve family- and deeper-clades at high support, (3) allows for outgroup rooting between genera, and (4) possesses no intercopy haplotype variability.

Druh

J_imp - Článek v periodiku v databázi Web of Science

CEP obor

—

OECD FORD obor

10602 - Biology (theoretical, mathematical, thermal, cryobiology, biological rhythm), Evolutionary biology

Projekt

<a href="/cs/project/GA22-23005S" target="_blank" >GA22-23005S: Identifikace a optimalizace nových úseků jaderné DNA pro fylogenetickou analýzu plicnatých plžů na druhové úrovni</a><br>

Návaznosti

P - Projekt vyzkumu a vyvoje financovany z verejnych zdroju (s odkazem do CEP)

Rok uplatnění

2023

Kód důvěrnosti údajů

S - Úplné a pravdivé údaje o projektu nepodléhají ochraně podle zvláštních právních předpisů

Název periodika

Organisms Diversity and Evolution

ISSN

1439-6092

e-ISSN

1618-1077

Svazek periodika

23

Číslo periodika v rámci svazku

3

Stát vydavatele periodika

DE - Spolková republika Německo

Počet stran výsledku

9

Strana od-do

621-629

Kód UT WoS článku

000878936100001

EID výsledku v databázi Scopus

2-s2.0-85153948736