Author correction: comparative genomic analysis of eutherian connexin genes

Correction to: _Scientific Reports_ https://doi.org/10.1038/s41598-019-53458-x, published online 15 November 2019 This Article contains errors. In the Introduction, “For example, the

protocol was applicable in initial descriptions of human genes50,52. There was positive correlation between genomic sequence redundancies of 35 public eutherian reference genomic sequence

data sets respectively and published complete coding sequence numbers50.” should read: “For example, the protocol was applicable in initial descriptions of human genes50,51. There was

positive correlation between genomic sequence redundancies of 35 public eutherian reference genomic sequence data sets respectively and published complete coding sequence numbers51.” In the

Results, “For example, the present analysis initially described human _CXNK1_ gene as complete coding sequence that disagreed with Fishman _et al_.53.” should read: “For example, the present

analysis initially described human _CXNK1_ gene as complete coding sequence that disagreed with Fishman _et al_.52.” “Second, among eutherian _CXN_ major gene clusters including orthologues

respectively, there were nucleotide sequence identity calculations typical in comparisons between eutherian orthologues (≈0,65–0,9)49,50,52.” should read: “Second, among eutherian _CXN_

major gene clusters including orthologues respectively, there were nucleotide sequence identity calculations typical in comparisons between eutherian orthologues (≈0,65–0,9)49,50,51.”

“Specifically, the major gene clusters _CXNH_ (_GJA4_, CX37) and _CXNK_ (_GJA1_, CX43) respectively included close eutherian orthologues and paralogues (≈0,7–0,85)49,50,52, but major gene

clusters _CXNJ_ (_GJA3_, CX46) and _CXNP_ (_GJC3_, CX30.2, CX31.3) respectively included typical eutherian orthologues and paralogues (≈0,45–0,7). Fourth, in comparisons between eutherian

_CXN_ major gene clusters, there were nucleotide sequence identity patterns of very close (>0,5), close (≈0,35–0,5), typical (≈0,25–0,35), distant (≈0,15–0,25) and very distant (<0,15)

eutherian homologues49,50,52.” should read: “Specifically, the major gene clusters _CXNH_ (_GJ__A4_, CX37) and _CXNK_ (_GJA1_, CX43) respectively included close eutherian orthologues and

paralogues (≈0,7–0,85)49,50,51, but major gene clusters _CXNJ_ (_GJA3_, CX46) and _CXNP_ (_GJ__C3_, CX30.2, CX31.3) respectively included typical eutherian orthologues and paralogues

(≈0,45–0,7). Fourth, in comparisons between eutherian _CXN_ major gene clusters, there were nucleotide sequence identity patterns of very close (>0,5), close (≈0,35–0,5), typical

(≈0,25–0,35), distant (≈0,15–0,25) and very distant (<0,15) eutherian homologues49,50,51.” In the Conclusions, “Using eutherian comparative genomic analysis protocol and 35 public

eutherian reference genomic sequence assemblies49,50,52, the present analysis attempted to update and revise comprehensive eutherian _CXN_ gene data sets, and address and resolve major

discrepancies in their descriptions.” should read: “Using eutherian comparative genomic analysis protocol and 35 public eutherian reference genomic sequence assemblies49,50,51, the present

analysis attempted to update and revise comprehensive eutherian _CXN_ gene data sets, and address and resolve major discrepancies in their descriptions.” In the Methods, “The eutherian

comparative genomic analysis protocol RRID:SCR_014401 integrated gene annotations, phylogenetic analysis and protein molecular evolution analysis with new genomics and protein molecular

evolution tests into one framework of eutherian gene descriptions49,50,52.” should read: “The eutherian comparative genomic analysis protocol RRID:SCR_014401 integrated gene annotations,

phylogenetic analysis and protein molecular evolution analysis with new genomics and protein molecular evolution tests into one framework of eutherian gene descriptions49,50,51.” “In

identifications of potential _CXN_ coding sequences in 35 eutherian reference genomic sequence data sets, the protocol used National Center for Biotechnology Information’s (NCBI) BLAST

Genomes35,36,54,55 (https://blast.ncbi.nlm.nih.gov/Blast.cgi) or Ensembl genome browser’s BLAST or BLAT37 (https://www.ensembl.org). Second, the potential _CXN_ coding sequences were then

used in tests of reliability of eutherian public genomic sequences. The first test steps analysed nucleotide sequence coverages of each potential _CXN_ coding sequence, using BLASTN54,55 and

processed public Sanger DNA sequencing reads or traces deposited in NCBI’s Trace Archive35 (https://www.ncbi.nlm.nih.gov/Traces/trace.cgi).” should read: “In identifications of potential

_CXN_ coding sequences in 35 eutherian reference genomic sequence data sets, the protocol used National Center for Biotechnology Information’s (NCBI) BLAST Genomes35,36,53,54

(https://blast.ncbi.nlm.nih.gov/Blast.cgi) or Ensembl genome browser’s BLAST or BLAT37 (https://www.ensembl.org). Second, the potential _CXN_ coding sequences were then used in tests of

reliability of eutherian public genomic sequences. The first test steps analysed nucleotide sequence coverages of each potential _CXN_ coding sequence, using BLASTN53,54 and processed public

Sanger DNA sequencing reads or traces deposited in NCBI’s Trace Archive35 (https://www.ncbi.nlm.nih.gov/Traces/trace.cgi).” “The protocol then deposited complete _CXN_ coding sequences in

European Nucleotide Archive as one curated eutherian gene data set56,57,58 (https://www.ebi.ac.uk/ena/about/tpa-policy). In updated human and eutherian _CXN_ gene classification and

nomenclature, the protocol used guidelines of human gene nomenclature59 (http://www.genenames.org/about/guidelines) and guidelines of mouse gene nomenclature

(http://www.informatics.jax.org/mgihome/nomen/gene.shtml). Specifically, the present eutherian _CXN_ gene name assignments used both phylogenetic analysis (Fig. 1) and genomic sequence

information (Supplementary Data File 1). Third, the protocol used mVISTA’s program AVID in multiple pairwise genomic sequence alignments using default settings51,60

(http://genome.lbl.gov/vista/index.shtml). In pairwise alignments with base sequences (_Homo sapiens_), the cut-offs of detection of common genomic sequence regions were calculated _a

posteriori_ using analyses of 11 eutherian major gene data sets49,50,52 including 95% along 100 bp (_Homo sapiens_, _Pan troglodytes_, _Gorilla gorilla_), 90% along 100 bp (_Pongo abelii_,

_Nomascus leucogenys_), 85% along 100 bp (_Macaca mulatta_, _Papio hamadryas_), 80% along 100 bp (_Callithrix jacchus_), 75% along 100 bp (_Tarsius syrichta_, _Microcebus murinus_, _Otolemur

garnettii_), 65% along 100 bp (Rodentia) or 70% along 100 bp in other pairwise alignments.” should read: “The protocol then deposited complete _CXN_ coding sequences in European Nucleotide

Archive as one curated eutherian gene data set55,56,57 (https://www.ebi.ac.uk/ena/about/tpa-policy). In updated human and eutherian _CXN_ gene classification and nomenclature, the protocol

used guidelines of human gene nomenclature58 (http://www.genenames.org/about/guidelines) and guidelines of mouse gene nomenclature (http://www.informatics.jax.org/mgihome/nomen/gene.shtml).

Specifically, the present eutherian _CXN_ gene name assignments used both phylogenetic analysis (Fig. 1) and genomic sequence information (Supplementary Data File 1). Third, the protocol

used mVISTA’s program AVID in multiple pairwise genomic sequence alignments using default settings59,60 (http://genome.lbl.gov/vista/index.shtml). In pairwise alignments with base sequences

(_Homo sapiens_), the cut-offs of detection of common genomic sequence regions were calculated _a posteriori_ using analyses of 11 eutherian major gene data sets49,50,51 including 95% along

100 bp (_Homo sapiens, Pan troglodytes, Gorilla gorilla_), 90% along 100 bp (_Pongo abelii, Nomascus leucogenys_), 85% along 100 bp (_Macaca mulatta, Papio hamadryas_), 80% along 100 bp

(_Callithrix jacchus_), 75% along 100 bp (_Tarsius syrichta, Microcebus murinus, Otolemur garnettii_), 65% along 100 bp (Rodentia) or 70% along 100 bp in other pairwise alignments.” AUTHOR

INFORMATION AUTHORS AND AFFILIATIONS * The Australian National University Alumni, Zagreb, Croatia Marko Premzl Authors * Marko Premzl View author publications You can also search for this

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