A mechanism for a single nucleotide intron shift

E. Fekete, M. Flipphi, Norbert Ág, Napsugár Kavalecz, Gustavo Cerqueira, Claudio Scazzocchio, L. Karaffa

Research output: Contribution to journalArticle

1 Citation (Scopus)

Abstract

Spliceosomal introns can occupy nearby rather than identical positions in orthologous genes (intron sliding or shifting). Stwintrons are complex intervening sequences, where an 'internal' intron interrupts one of the sequences essential for splicing, generating after its excision, a newly formed canonical intron defined as 'external'. In one experimentally demonstrated configuration, two alternatively excised internal introns, overlapping by one G, disrupt respectively the donor and the acceptor sequence of an external intron, leading to mRNAs encoding identical proteins. In a gene encoding a DHA1 antiporter in Pezizomycotina, we find a variety of predicted intron configurations interrupting the DNA stretch encoding a conserved peptidic sequence. Some sport a stwintron where the internal intron interrupts the donor of the external intron (experimentally confirmed for Aspergillus nidulans). In others, we found and demonstrate (forTrichoderma reesei) alternative, overlapping internal introns. Discordant canonical introns, one nt apart, are present in yet other species, exactly as predicted by the alternative loss of either of the internal introns at the DNA level from an alternatively spliced stwintron. An evolutionary pathway of 1 nt intron shift, involving an alternatively spliced stwintron intermediate is proposed on the basis of the experimental and genomic data presented.

Original languageEnglish
Pages (from-to)9085-9092
Number of pages8
JournalNucleic Acids Research
Volume45
Issue number15
DOIs
Publication statusPublished - Sep 1 2017

Fingerprint

Introns
Nucleotides
Antiporters
Aspergillus nidulans
Conserved Sequence
DNA
Genes
Sports

ASJC Scopus subject areas

  • Genetics

Cite this

A mechanism for a single nucleotide intron shift. / Fekete, E.; Flipphi, M.; Ág, Norbert; Kavalecz, Napsugár; Cerqueira, Gustavo; Scazzocchio, Claudio; Karaffa, L.

In: Nucleic Acids Research, Vol. 45, No. 15, 01.09.2017, p. 9085-9092.

Research output: Contribution to journalArticle

Fekete, E, Flipphi, M, Ág, N, Kavalecz, N, Cerqueira, G, Scazzocchio, C & Karaffa, L 2017, 'A mechanism for a single nucleotide intron shift', Nucleic Acids Research, vol. 45, no. 15, pp. 9085-9092. https://doi.org/10.1093/nar/gkx520
Fekete E, Flipphi M, Ág N, Kavalecz N, Cerqueira G, Scazzocchio C et al. A mechanism for a single nucleotide intron shift. Nucleic Acids Research. 2017 Sep 1;45(15):9085-9092. https://doi.org/10.1093/nar/gkx520
Fekete, E. ; Flipphi, M. ; Ág, Norbert ; Kavalecz, Napsugár ; Cerqueira, Gustavo ; Scazzocchio, Claudio ; Karaffa, L. / A mechanism for a single nucleotide intron shift. In: Nucleic Acids Research. 2017 ; Vol. 45, No. 15. pp. 9085-9092.
@article{3b366807f05a4e27882891dd7f7d6dd2,
title = "A mechanism for a single nucleotide intron shift",
abstract = "Spliceosomal introns can occupy nearby rather than identical positions in orthologous genes (intron sliding or shifting). Stwintrons are complex intervening sequences, where an 'internal' intron interrupts one of the sequences essential for splicing, generating after its excision, a newly formed canonical intron defined as 'external'. In one experimentally demonstrated configuration, two alternatively excised internal introns, overlapping by one G, disrupt respectively the donor and the acceptor sequence of an external intron, leading to mRNAs encoding identical proteins. In a gene encoding a DHA1 antiporter in Pezizomycotina, we find a variety of predicted intron configurations interrupting the DNA stretch encoding a conserved peptidic sequence. Some sport a stwintron where the internal intron interrupts the donor of the external intron (experimentally confirmed for Aspergillus nidulans). In others, we found and demonstrate (forTrichoderma reesei) alternative, overlapping internal introns. Discordant canonical introns, one nt apart, are present in yet other species, exactly as predicted by the alternative loss of either of the internal introns at the DNA level from an alternatively spliced stwintron. An evolutionary pathway of 1 nt intron shift, involving an alternatively spliced stwintron intermediate is proposed on the basis of the experimental and genomic data presented.",
author = "E. Fekete and M. Flipphi and Norbert {\'A}g and Napsug{\'a}r Kavalecz and Gustavo Cerqueira and Claudio Scazzocchio and L. Karaffa",
year = "2017",
month = "9",
day = "1",
doi = "10.1093/nar/gkx520",
language = "English",
volume = "45",
pages = "9085--9092",
journal = "Nucleic Acids Research",
issn = "0305-1048",
publisher = "Oxford University Press",
number = "15",

}

TY - JOUR

T1 - A mechanism for a single nucleotide intron shift

AU - Fekete, E.

AU - Flipphi, M.

AU - Ág, Norbert

AU - Kavalecz, Napsugár

AU - Cerqueira, Gustavo

AU - Scazzocchio, Claudio

AU - Karaffa, L.

PY - 2017/9/1

Y1 - 2017/9/1

N2 - Spliceosomal introns can occupy nearby rather than identical positions in orthologous genes (intron sliding or shifting). Stwintrons are complex intervening sequences, where an 'internal' intron interrupts one of the sequences essential for splicing, generating after its excision, a newly formed canonical intron defined as 'external'. In one experimentally demonstrated configuration, two alternatively excised internal introns, overlapping by one G, disrupt respectively the donor and the acceptor sequence of an external intron, leading to mRNAs encoding identical proteins. In a gene encoding a DHA1 antiporter in Pezizomycotina, we find a variety of predicted intron configurations interrupting the DNA stretch encoding a conserved peptidic sequence. Some sport a stwintron where the internal intron interrupts the donor of the external intron (experimentally confirmed for Aspergillus nidulans). In others, we found and demonstrate (forTrichoderma reesei) alternative, overlapping internal introns. Discordant canonical introns, one nt apart, are present in yet other species, exactly as predicted by the alternative loss of either of the internal introns at the DNA level from an alternatively spliced stwintron. An evolutionary pathway of 1 nt intron shift, involving an alternatively spliced stwintron intermediate is proposed on the basis of the experimental and genomic data presented.

AB - Spliceosomal introns can occupy nearby rather than identical positions in orthologous genes (intron sliding or shifting). Stwintrons are complex intervening sequences, where an 'internal' intron interrupts one of the sequences essential for splicing, generating after its excision, a newly formed canonical intron defined as 'external'. In one experimentally demonstrated configuration, two alternatively excised internal introns, overlapping by one G, disrupt respectively the donor and the acceptor sequence of an external intron, leading to mRNAs encoding identical proteins. In a gene encoding a DHA1 antiporter in Pezizomycotina, we find a variety of predicted intron configurations interrupting the DNA stretch encoding a conserved peptidic sequence. Some sport a stwintron where the internal intron interrupts the donor of the external intron (experimentally confirmed for Aspergillus nidulans). In others, we found and demonstrate (forTrichoderma reesei) alternative, overlapping internal introns. Discordant canonical introns, one nt apart, are present in yet other species, exactly as predicted by the alternative loss of either of the internal introns at the DNA level from an alternatively spliced stwintron. An evolutionary pathway of 1 nt intron shift, involving an alternatively spliced stwintron intermediate is proposed on the basis of the experimental and genomic data presented.

UR - http://www.scopus.com/inward/record.url?scp=85031016310&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=85031016310&partnerID=8YFLogxK

U2 - 10.1093/nar/gkx520

DO - 10.1093/nar/gkx520

M3 - Article

C2 - 28595329

AN - SCOPUS:85031016310

VL - 45

SP - 9085

EP - 9092

JO - Nucleic Acids Research

JF - Nucleic Acids Research

SN - 0305-1048

IS - 15

ER -