Nuclear-Cytoplasmic Conflict in Pea (Pisum sativum L.) Is Associated with Nuclear and Plastidic Candidate Genes Encoding Acetyl-CoA Carboxylase Subunits
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{"title"=>"Nuclear-cytoplasmic conflict in pea (Pisum sativum L.) is associated with nuclear and plastidic candidate genes encoding acetyl-coA carboxylase subunits", "type"=>"journal", "authors"=>[{"first_name"=>"Vera S.", "last_name"=>"Bogdanova", "scopus_author_id"=>"7005614292"}, {"first_name"=>"Olga O.", "last_name"=>"Zaytseva", "scopus_author_id"=>"55900561900"}, {"first_name"=>"Anatoliy V.", "last_name"=>"Mglinets", "scopus_author_id"=>"6507658913"}, {"first_name"=>"Natalia V.", "last_name"=>"Shatskaya", "scopus_author_id"=>"55573187500"}, {"first_name"=>"Oleg E.", "last_name"=>"Kosterin", "scopus_author_id"=>"6603142281"}, {"first_name"=>"Gennadiy V.", "last_name"=>"Vasiliev", "scopus_author_id"=>"6603544860"}], "year"=>2015, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-84925436610", "doi"=>"10.1371/journal.pone.0119835", "sgr"=>"84925436610", "pmid"=>"25789472", "issn"=>"19326203", "pui"=>"603271449"}, "id"=>"8fc8904b-ccfc-30b8-be66-954be9b3abc4", "abstract"=>"In crosses of wild and cultivated peas (Pisum sativum L.), nuclear-cytoplasmic incompatibility frequently occurs manifested as decreased pollen fertility, male gametophyte lethality, sporophyte lethality. High-throughput sequencing of plastid genomes of one cultivated and four wild pea accessions differing in cross-compatibility was performed. Candidate genes for involvement in the nuclear-plastid conflict were searched in the reconstructed plastid genomes. In the annotated Medicago truncatula genome, nuclear candidate genes were searched in the portion syntenic to the pea chromosome region known to harbor a locus involved in the conflict. In the plastid genomes, a substantial variability of the accD locus represented by nucleotide substitutions and indels was found to correspond to the pattern of cross-compatibility among the accessions analyzed. Amino acid substitutions in the polypeptides encoded by the alleles of a nuclear locus, designated as Bccp3, with a complementary function to accD, fitted the compatibility pattern. The accD locus in the plastid genome encoding beta subunit of the carboxyltransferase of acetyl-coA carboxylase and the nuclear locus Bccp3 encoding biotin carboxyl carrier protein of the same multi-subunit enzyme were nominated as candidate genes for main contribution to nuclear-cytoplasmic incompatibility in peas. Existence of another nuclear locus involved in the accD-mediated conflict is hypothesized.", "link"=>"http://www.mendeley.com/research/nuclearcytoplasmic-conflict-pea-pisum-sativum-l-associated-nuclear-plastidic-candidate-genes-encodin", "reader_count"=>19, "reader_count_by_academic_status"=>{"Unspecified"=>3, "Professor > Associate Professor"=>1, "Student > Doctoral Student"=>2, "Researcher"=>1, "Student > Ph. D. Student"=>4, "Student > Postgraduate"=>1, "Student > Master"=>5, "Student > Bachelor"=>1, "Professor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>3, "Professor > Associate Professor"=>1, "Student > Doctoral Student"=>2, "Researcher"=>1, "Student > Ph. D. Student"=>4, "Student > Postgraduate"=>1, "Student > Master"=>5, "Student > Bachelor"=>1, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>5, "Biochemistry, Genetics and Molecular Biology"=>5, "Medicine and Dentistry"=>1, "Agricultural and Biological Sciences"=>8}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>1}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>8}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>5}, "Unspecified"=>{"Unspecified"=>5}}, "reader_count_by_country"=>{"Netherlands"=>1, "Japan"=>1}, "group_count"=>0}

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1961846"], "description"=>"<p>A. Pea genetic map based on a cross in the background of the VIR320 cytoplasm (Bogdanova <i>et al</i>., 2012). B. Physical map of <i>M</i>. <i>truncatula</i>. Dashed line stands for a gap of unknown length. C. Pea genetic map based on mapping RIL population in the background of the WL1238 cytoplasm.</p>", "links"=>[], "tags"=>["plastid genomes", "Medicago truncatula genome", "candidate genes", "accD locus", "locus Bccp 3 encoding biotin carboxyl carrier protein", "Amino acid substitutions", "plastid genome encoding beta subunit", "pea chromosome region", "conflict"], "article_id"=>1343505, "categories"=>["Biological Sciences"], "users"=>["Vera S. Bogdanova", "Olga O. Zaytseva", "Anatoliy V. Mglinets", "Natalia V. Shatskaya", "Oleg E. Kosterin", "Gennadiy V. Vasiliev"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119835.g001", "stats"=>{"downloads"=>2, "page_views"=>11, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_the_genetic_map_of_pea_LGIII_and_the_physical_map_of_M_truncatula_chromosome_3_NC_016409_/1343505", "title"=>"Comparison of the genetic map of pea LGIII and the physical map of <i>M</i>. <i>truncatula</i> chromosome 3 (NC_016409).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-19 03:38:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1961848"], "description"=>"<p>Dots indicate amino acid residues identical to those of WL1238. Dashes stand for deletions.</p>", "links"=>[], "tags"=>["plastid genomes", "Medicago truncatula genome", "candidate genes", "accD locus", "locus Bccp 3 encoding biotin carboxyl carrier protein", "Amino acid substitutions", "plastid genome encoding beta subunit", "pea chromosome region", "conflict"], "article_id"=>1343507, "categories"=>["Biological Sciences"], "users"=>["Vera S. Bogdanova", "Olga O. Zaytseva", "Anatoliy V. Mglinets", "Natalia V. Shatskaya", "Oleg E. Kosterin", "Gennadiy V. Vasiliev"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119835.g002", "stats"=>{"downloads"=>0, "page_views"=>18, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Alignment_of_the_derived_amino_acid_sequences_encoded_by_accD_alleles_of_the_accessions_studied_/1343507", "title"=>"Alignment of the derived amino acid sequences encoded by <i>accD</i> alleles of the accessions studied.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-19 03:38:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1961850"], "description"=>"<p>Dots indicate amino acid residues identical to those of WL1238.</p>", "links"=>[], "tags"=>["plastid genomes", "Medicago truncatula genome", "candidate genes", "accD locus", "locus Bccp 3 encoding biotin carboxyl carrier protein", "Amino acid substitutions", "plastid genome encoding beta subunit", "pea chromosome region", "conflict"], "article_id"=>1343509, "categories"=>["Biological Sciences"], "users"=>["Vera S. Bogdanova", "Olga O. Zaytseva", "Anatoliy V. Mglinets", "Natalia V. Shatskaya", "Oleg E. Kosterin", "Gennadiy V. Vasiliev"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119835.g003", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Alignment_of_the_derived_amino_acid_sequences_encoded_by_Bccp3_alleles_of_the_accessions_studied_/1343509", "title"=>"Alignment of the derived amino acid sequences encoded by <i>Bccp3</i> alleles of the accessions studied.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-19 03:38:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1961852"], "description"=>"<p>Partially compatible combinations display decreased pollen fertility but without lethal effects [<a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0119835#pone.0119835.ref024\" target=\"_blank\">24</a>].</p>", "links"=>[], "tags"=>["plastid genomes", "Medicago truncatula genome", "candidate genes", "accD locus", "locus Bccp 3 encoding biotin carboxyl carrier protein", "Amino acid substitutions", "plastid genome encoding beta subunit", "pea chromosome region", "conflict"], "article_id"=>1343511, "categories"=>["Biological Sciences"], "users"=>["Vera S. Bogdanova", "Olga O. Zaytseva", "Anatoliy V. Mglinets", "Natalia V. Shatskaya", "Oleg E. Kosterin", "Gennadiy V. Vasiliev"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119835.g004", "stats"=>{"downloads"=>1, "page_views"=>23, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Presumable_sheme_of_compatible_and_incompatible_combinations_of_molecular_determinants_in_the_plastid_accD_and_nuclear_loci_/1343511", "title"=>"Presumable sheme of compatible and incompatible combinations of molecular determinants in the plastid <i>accD</i> and nuclear loci.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2015-03-19 03:38:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1961853"], "description"=>"<p>Differences occurring in two incompatible cytoplasms, VIR320 and L100, are marked boldfaced and italicised.</p><p>Variable positions in the alignment of the polypeptidees derived from the <i>accD</i> alleles, amino acid changes as compared to WL1238 and their occurrence in the pea accessions studied.</p>", "links"=>[], "tags"=>["plastid genomes", "Medicago truncatula genome", "candidate genes", "accD locus", "locus Bccp 3 encoding biotin carboxyl carrier protein", "Amino acid substitutions", "plastid genome encoding beta subunit", "pea chromosome region", "conflict"], "article_id"=>1343512, "categories"=>["Biological Sciences"], "users"=>["Vera S. Bogdanova", "Olga O. Zaytseva", "Anatoliy V. Mglinets", "Natalia V. Shatskaya", "Oleg E. Kosterin", "Gennadiy V. Vasiliev"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119835.t001", "stats"=>{"downloads"=>5, "page_views"=>13, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Variable_positions_in_the_alignment_of_the_polypeptidees_derived_from_the_accD_alleles_amino_acid_changes_as_compared_to_WL1238_and_their_occurrence_in_the_pea_accessions_studied_/1343512", "title"=>"Variable positions in the alignment of the polypeptidees derived from the <i>accD</i> alleles, amino acid changes as compared to WL1238 and their occurrence in the pea accessions studied.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-03-19 03:38:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1961854"], "description"=>"<p>Differences occurring in two accessions, VIR320 and L100 with incompatible cytoplasms are boldfaced and italicised.</p><p>Variable positions in the alignment of the polypeptides derived from the <i>Bccp3</i> alleles, amino acid changes as compared to WL1238 and their occurrence in the pea accessions studied.</p>", "links"=>[], "tags"=>["plastid genomes", "Medicago truncatula genome", "candidate genes", "accD locus", "locus Bccp 3 encoding biotin carboxyl carrier protein", "Amino acid substitutions", "plastid genome encoding beta subunit", "pea chromosome region", "conflict"], "article_id"=>1343513, "categories"=>["Biological Sciences"], "users"=>["Vera S. Bogdanova", "Olga O. Zaytseva", "Anatoliy V. Mglinets", "Natalia V. Shatskaya", "Oleg E. Kosterin", "Gennadiy V. Vasiliev"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0119835.t002", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Variable_positions_in_the_alignment_of_the_polypeptides_derived_from_the_Bccp3_alleles_amino_acid_changes_as_compared_to_WL1238_and_their_occurrence_in_the_pea_accessions_studied_/1343513", "title"=>"Variable positions in the alignment of the polypeptides derived from the <i>Bccp3</i> alleles, amino acid changes as compared to WL1238 and their occurrence in the pea accessions studied.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2015-03-19 03:38:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1961855", "https://ndownloader.figshare.com/files/1961856", "https://ndownloader.figshare.com/files/1961857"], "description"=>"<div><p>In crosses of wild and cultivated peas (<i>Pisum sativum</i> L.), nuclear-cytoplasmic incompatibility frequently occurs manifested as decreased pollen fertility, male gametophyte lethality, sporophyte lethality. High-throughput sequencing of plastid genomes of one cultivated and four wild pea accessions differing in cross-compatibility was performed. Candidate genes for involvement in the nuclear-plastid conflict were searched in the reconstructed plastid genomes. In the annotated <i>Medicago truncatula</i> genome, nuclear candidate genes were searched in the portion syntenic to the pea chromosome region known to harbor a locus involved in the conflict. In the plastid genomes, a substantial variability of the <i>accD</i> locus represented by nucleotide substitutions and indels was found to correspond to the pattern of cross-compatibility among the accessions analyzed. Amino acid substitutions in the polypeptides encoded by the alleles of a nuclear locus, designated as <i>Bccp3</i>, with a complementary function to <i>accD</i>, fitted the compatibility pattern. The <i>accD</i> locus in the plastid genome encoding beta subunit of the carboxyltransferase of acetyl-coA carboxylase and the nuclear locus <i>Bccp3</i> encoding biotin carboxyl carrier protein of the same multi-subunit enzyme were nominated as candidate genes for main contribution to nuclear-cytoplasmic incompatibility in peas. Existence of another nuclear locus involved in the <i>accD</i>-mediated conflict is hypothesized.</p></div>", "links"=>[], "tags"=>["plastid genomes", "Medicago truncatula genome", "candidate genes", "accD locus", "locus Bccp 3 encoding biotin carboxyl carrier protein", "Amino acid substitutions", "plastid genome encoding beta subunit", "pea chromosome region", "conflict"], "article_id"=>1343514, "categories"=>["Biological Sciences"], "users"=>["Vera S. Bogdanova", "Olga O. Zaytseva", "Anatoliy V. Mglinets", "Natalia V. Shatskaya", "Oleg E. Kosterin", "Gennadiy V. Vasiliev"], "doi"=>["https://dx.doi.org/10.1371/journal.pone.0119835.s001", "https://dx.doi.org/10.1371/journal.pone.0119835.s002", "https://dx.doi.org/10.1371/journal.pone.0119835.s003"], "stats"=>{"downloads"=>0, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/Nuclear_Cytoplasmic_Conflict_in_Pea_Pisum_sativum_L_Is_Associated_with_Nuclear_and_Plastidic_Candidate_Genes_Encoding_Acetyl_CoA_Carboxylase_Subunits/1343514", "title"=>"Nuclear-Cytoplasmic Conflict in Pea (<i>Pisum sativum</i> L.) Is Associated with Nuclear and Plastidic Candidate Genes Encoding Acetyl-CoA Carboxylase Subunits", "pos_in_sequence"=>0, "defined_type"=>4, "published_date"=>"2015-03-19 03:38:46"}

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{"start_date"=>"2015-01-01T00:00:00Z", "end_date"=>"2015-12-31T00:00:00Z", "subject_areas"=>[]}
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