Massive changes in genome architecture accompany the transition to self-fertility in the filamentous fungus Neurospora tetrasperma (Q35221506)

7 August 2017

title

Massive changes in genome architecture accompany the transition to self-fertility in the filamentous fungus Neurospora tetrasperma (English)

1 reference

7 August 2017

main subject

Neurospora tetrasperma

object named as

Neurospora tetrasperma

1 reference

2

1 reference

7 August 2017

10

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7 August 2017

5

Alla Lapidus

0 references

Andrea L. Aerts

7

object named as

Andrea Aerts

1 reference

7 August 2017

9

Erika A Lindquist

1 reference

7 August 2017

author name string

Christopher E Ellison

1

1 reference

7 August 2017

David J Jacobson

3

1 reference

7 August 2017

Donald O Natvig

4

1 reference

7 August 2017

Brian Foster

6

1 reference

7 August 2017

Robert Riley

8

1 reference

7 August 2017

John W Taylor

11

1 reference

7 August 2017

language of work or name

English

0 references

publication date

12 July 2011

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7 August 2017

number of pages

15

1 reference

based on heuristic

inferred from page(s)

published in

Genetics

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7 August 2017

volume

189

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7 August 2017

issue

1

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7 August 2017

page(s)

55-69

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Evolution of synonymous codon usage in Neurospora tetrasperma and Neurospora discreta

7 August 2017

cites work

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Evidence of the accumulation of allele-specific non-synonymous substitutions in the young region of recombination suppression within the mating-type chromosomes of Neurospora tetrasperma

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Consequences of reproductive mode on genome evolution in fungi

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Degeneration in codon usage within the region of suppressed recombination in the mating-type chromosomes of Neurospora tetrasperma.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Analysis of leaf and root transcriptomes of soil-grown Avena barbata plants

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Population genomics and local adaptation in wild isolates of a model microbial eukaryote

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

DNA polymorphism in recombining and non-recombing mating-type-specific loci of the smut fungus Microbotryum

13 July 2018

1 reference

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Triggers for genomic rearrangements: insights into genomic, cellular and environmental influences

13 July 2018

1 reference

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Non-homologous sex chromosomes of birds and snakes share repetitive sequences

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Gene genealogies indicates abundant gene conversions and independent evolutionary histories of the mating-type chromosomes in the evolutionary history of Neurospora tetrasperma

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Gene duplication, gene conversion and the evolution of the Y chromosome

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The mating type locus (MAT) and sexual reproduction of Cryptococcus heveanensis: insights into the evolution of sex and sex-determining chromosomal regions in fungi

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Origin and fate of pseudogenes in Hemiascomycetes: a comparative analysis

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Phylogenetic and biological species diversity within the Neurospora tetrasperma complex

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Evolutionary and expression signatures of pseudogenes in Arabidopsis and rice

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Evolutionary strata in a small mating-type-specific region of the smut fungus Microbotryum violaceum.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

A microhomology-mediated break-induced replication model for the origin of human copy number variation

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Relics of repeat-induced point mutation direct heterochromatin formation in Neurospora crassa

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Double-strand breaks associated with repetitive DNA can reshape the genome

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Neo-sex chromosomes in the black muntjac recapitulate incipient evolution of mammalian sex chromosomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Bird-like sex chromosomes of platypus imply recent origin of mammal sex chromosomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The mating-type chromosome in the filamentous ascomycete Neurospora tetrasperma represents a model for early evolution of sex chromosomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Identification of the sex genes in an early diverged fungus

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

A DNA replication mechanism for generating nonrecurrent rearrangements associated with genomic disorders

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

KEGG for linking genomes to life and the environment

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Pseudogenes in the ENCODE regions: consensus annotation, analysis of transcription, and evolution

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Principles of genome evolution in the Drosophila melanogaster species group

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

KaKs_Calculator: calculating Ka and Ks through model selection and model averaging

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Gene organization of the liverwort Y chromosome reveals distinct sex chromosome evolution in a haploid system

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Reduced efficacy of selection in regions of the Drosophila genome that lack crossing over

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Genomic organization of the sex-determining and adjacent regions of the sex chromosomes of medaka

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Chromosomal sex-determining regions in animals, plants and fungi

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Recombination enhances protein adaptation in Drosophila melanogaster

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Blocked recombination along the mating-type chromosomes of Neurospora tetrasperma involves both structural heterozygosity and autosomal genes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Steps in the evolution of heteromorphic sex chromosomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The significance of responses of the genome to challenge

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Automated generation of heuristics for biological sequence comparison

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

A gradual process of recombination restriction in the evolutionary history of the sex chromosomes in dioecious plants

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Convergent evolution of chromosomal sex-determining regions in the animal and fungal kingdoms

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

RIP: the evolutionary cost of genome defense

13 July 2018

1 reference

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Versatile and open software for comparing large genomes

13 July 2018

1 reference

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A comprehensive evolutionary classification of proteins encoded in complete eukaryotic genomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Evolution of fungal sex chromosomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The problem of counting sites in the estimation of the synonymous and nonsynonymous substitution rates: implications for the correlation between the synonymous substitution rate and codon usage bias

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Protein evolution and codon usage bias on the neo-sex chromosomes of Drosophila miranda.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

ExPASy: The proteomics server for in-depth protein knowledge and analysis

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Abundant gene conversion between arms of palindromes in human and ape Y chromosomes.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The SWISS-PROT protein knowledgebase and its supplement TrEMBL in 2003

13 July 2018

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Mating-type locus of Cryptococcus neoformans: a step in the evolution of sex chromosomes

13 July 2018

1 reference

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Linkage limits the power of natural selection in Drosophila

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

BLAT—The BLAST-Like Alignment Tool

13 July 2018

1 reference

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An efficient algorithm for large-scale detection of protein families

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Dimorphic mating-type chromosomes in the fungus Microbotryum violaceum

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

InterProScan--an integration platform for the signature-recognition methods in InterPro

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The degeneration of Y chromosomes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Repbase update: a database and an electronic journal of repetitive elements

13 July 2018

1 reference

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EMBOSS: the European Molecular Biology Open Software Suite

13 July 2018

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Gene ontology: tool for the unification of biology

13 July 2018

1 reference

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Using GeneWise in the Drosophila annotation experiment

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Ab initio gene finding in Drosophila genomic DNA

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Suppressed recombination and a pairing anomaly on the mating-type chromosome of Neurospora tetrasperma

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The mating-type and pathogenicity locus of the fungus Ustilago hordei spans a 500-kb region

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Four evolutionary strata on the human X chromosome.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Suppression of crossing-over by DNA methylation in Ascobolus

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Mating types and sexual development in filamentous ascomycetes

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Comparison of DNA sequences with protein sequences.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Identification of prokaryotic and eukaryotic signal peptides and prediction of their cleavage sites

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Pseudohomothallism and evolution of the mating-type chromosome in Neurospora tetrasperma

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The mismatch repair system contributes to meiotic sterility in an interspecific yeast hybrid.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Reduced natural selection associated with low recombination in Drosophila melanogaster.

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Diverse programs of ascus development in pseudohomothallic species of Neurospora, Gelasinospora, and Podospora

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Linkage group establishment in Neurospora tetrasperma by interspecific hybridization with N. crassa

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

The codon Adaptation Index--a measure of directional synonymous codon usage bias, and its potential applications

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Basic local alignment search tool

13 July 2018

1 reference

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Evidence for non-random spatial distribution of meiotic exchanges in Podospora anserina: Comparison between linkage groups 1 and 6

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Occurrence in Wild Strains of Neurospora crassa of Genes Controlling Genetic Recombination

13 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

A comprehensive phylogeny of Neurospora reveals a link between reproductive mode and molecular evolution in fungi

13 July 2018

1 reference

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Reduced effectiveness of selection caused by a lack of recombination.

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Evidence for degeneration of the Y chromosome in the dioecious plant Silene latifolia

26 September 2018

1 reference

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Aligning multiple whole genomes with Mercator and MAVID.

26 September 2018

1 reference

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Chromosomal evolution: inversions: the chicken or the egg?

26 September 2018

1 reference

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The master sex-determination locus in threespine sticklebacks is on a nascent Y chromosome

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

A primitive Y chromosome in papaya marks incipient sex chromosome evolution

26 September 2018

1 reference

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Reliability measures for membrane protein topology prediction algorithms.

26 September 2018

1 reference

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Allelic diversity at the het-c locus in Neurospora tetrasperma confirms outcrossing in nature and reveals an evolutionary dilemma for pseudohomothallic ascomycetes

26 September 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3176108

Characteristic features of the nucleotide sequences of yeast mitochondrial ribosomal protein genes as analyzed by computer program GeneMark.

26 September 2018

1 reference

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Complex gene rearrangements caused by serial replication slippage

26 September 2018

1 reference

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Heteroallelism at the het-c locus contributes to sexual dysfunction in outcrossed strains of Neurospora tetrasperma

24 October 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21750257

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Parallel divergence and degradation of the avian W sex chromosome

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/21750257

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1534/GENETICS.111.130690

1 reference

7 August 2017

1 reference

7 August 2017

1 reference