A Proteomic Analysis of Seed Development in Brassica campestri L
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{"title"=>"A Proteomic Analysis of Seed Development in Brassica campestri L", "type"=>"journal", "authors"=>[{"first_name"=>"Wenlan", "last_name"=>"Li", "scopus_author_id"=>"53063941600"}, {"first_name"=>"Yi", "last_name"=>"Gao", "scopus_author_id"=>"55731340100"}, {"first_name"=>"Hong", "last_name"=>"Xu", "scopus_author_id"=>"57198604147"}, {"first_name"=>"Yu", "last_name"=>"Zhang", "scopus_author_id"=>"56025150600"}, {"first_name"=>"Jianbo", "last_name"=>"Wang", "scopus_author_id"=>"7701309180"}], "year"=>2012, "source"=>"PLoS ONE", "identifiers"=>{"issn"=>"19326203", "pmid"=>"23189193", "scopus"=>"2-s2.0-84870051120", "doi"=>"10.1371/journal.pone.0050290", "pui"=>"366134091", "sgr"=>"84870051120"}, "id"=>"3de650a3-6ddd-3bbf-867e-4908f9df911b", "abstract"=>"To gain insights into the protein dynamics during seed development, a proteomic study on the developing Brassica campestri L. seeds with embryos in different embryogenesis stages was carried out. The seed proteins at 10, 16, 20, 25 and 35 DAP (days after pollination), respectively, were separated using two-dimensional gel electrophoresis and identities of 209 spots with altered abundance were determined by matrix-assisted laser desorption ionization time-of-flight/time-of-flight mass spectrometry (MALDI-TOF/TOF MS). These proteins were classified into 16 groups according to their functions. The most abundant proteins were related to primary metabolism, indicating the heavy demand of materials for rapid embryo growth. Besides, the high amount of proteins involved in protein processing and destination indicated importance of protein renewal during seed development. The remaining were those participated in oxidation/detoxification, energy, defense, transcription, protein synthesis, transporter, cell structure, signal transduction, secondary metabolism, transposition, DNA repair, storage and so on. Protein abundance profiles of each functional class were generated and hierarchical cluster analysis established 8 groups of dynamic patterns. Our results revealed novel characters of protein dynamics in seed development in Brassica campestri L. and provided valuable information about the complex process of seed development in plants.", "link"=>"http://www.mendeley.com/research/proteomic-analysis-seed-development-brassica-campestri-l", "reader_count"=>18, "reader_count_by_academic_status"=>{"Researcher"=>4, "Student > Ph. D. Student"=>8, "Student > Postgraduate"=>1, "Student > Master"=>2, "Student > Bachelor"=>2, "Professor"=>1}, "reader_count_by_user_role"=>{"Researcher"=>4, "Student > Ph. D. Student"=>8, "Student > Postgraduate"=>1, "Student > Master"=>2, "Student > Bachelor"=>2, "Professor"=>1}, "reader_count_by_subject_area"=>{"Unspecified"=>1, "Biochemistry, Genetics and Molecular Biology"=>2, "Agricultural and Biological Sciences"=>15}, "reader_count_by_subdiscipline"=>{"Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>15}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>2}, "Unspecified"=>{"Unspecified"=>1}}, "group_count"=>0}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/537421"], "description"=>"<p>The profiles were established by the protein expression value (vertical axis) at each developmental stage (horizontal axis). The expression level of the differentially accumulated proteins within each cluster is shown. Each colored line represents a protein identity.</p>", "links"=>[], "tags"=>["profiles", "hierarchical", "clusters"], "article_id"=>207917, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.g005", "stats"=>{"downloads"=>2, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Abundance_profiles_of_eight_hierarchical_clusters_c1_8211_c8_/207917", "title"=>"Abundance profiles of eight hierarchical clusters (c1–c8).", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-19 19:48:13"}
  • {"files"=>["https://ndownloader.figshare.com/files/537641"], "description"=>"<p>Proteins involved in sugar metabolism that provide carbon sources for biosynthetic pathways are shown (red). The × axis shows each of the five stages and the y axis shows the relative volume of identified proteins. Abbreviations for metabolites: UDP-G, UDP-Glc; G-1-P, Glc 1 phosphate; G-6-P, Glc 6 phosphate; F-6-P, Fru 6 phosphate; F-1,6-bP, Fru 1,6 bis phosphate; GAP, glyceraldehyde 3-P; DHAP, dihydroxyacetone phosphate; 1,3-bPGA, 1,3 bis phosphoglyceric acid; 3-PGA, 3 phosphoglyceric acid; 2-PGA, 2 phosphoglyceric acid; PEP, phosphoenolpyruvate. Abbreviations for enzymes: PGI, phosphoglucose isomerase; PFK, pyrophosphate-dependent phosphofructokinase; FBA, Fru bisphosphate aldolase; GAPDH, glyceraldehyde 3-P dehydrogenase; TPI, triose-phosphate isomerase; PGK, phosphoglyceratekinase; iPGAM, 2,3-bisphosphoglycerate-independent phosphoglycerate mutase; PRK, phosphoribulokinase; Rubisco, ribulose-1,5-bisphosphate carboxylase; PK, pyruvate kinase; PDH, pyruvate dehydrogenase; MDH, malate dehydrogenase.</p>", "links"=>[], "tags"=>["carbon", "metabolism"], "article_id"=>208137, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.g006", "stats"=>{"downloads"=>0, "page_views"=>11, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Characterization_of_central_carbon_metabolism_in_developing_seed_of_Brassica_campestri_L_/208137", "title"=>"Characterization of central carbon metabolism in developing seed of <i>Brassica campestri</i> L.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-19 19:49:28"}
  • {"files"=>["https://ndownloader.figshare.com/files/537314"], "description"=>"<p>The combined accumulation profiles were calculated as the sum of expression value of all the proteins in each category (y axis) at each developmental stage (x axis).</p>", "links"=>[], "tags"=>["abundance", "profiles"], "article_id"=>207810, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.g004", "stats"=>{"downloads"=>2, "page_views"=>16, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Composite_protein_abundance_profiles_of_each_functional_categories_/207810", "title"=>"Composite protein abundance profiles of each functional categories.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-19 19:47:36"}
  • {"files"=>["https://ndownloader.figshare.com/files/537247"], "description"=>"<p>The changed protein spots were identified by MALDI-TOF/TOF MS, and classified into 16 groups according to their functions using the NCBI da0ase. Out of a total of 209 identified proteins (red), 147 had nonredundant function (blue). The number above the bar indicates the proportion of each group of protein.</p>", "links"=>[], "tags"=>["classification", "proteins"], "article_id"=>207740, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.g003", "stats"=>{"downloads"=>1, "page_views"=>30, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Functional_classification_of_identified_seed_proteins_of_Brassica_campestri_L_/207740", "title"=>"Functional classification of identified seed proteins of <i>Brassica campestri</i> L.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-19 19:47:12"}
  • {"files"=>["https://ndownloader.figshare.com/files/537857"], "description"=>"<p>Hierarchical clusters of differentially accumulated seed proteins and distribution of the proteins belonging to each category in different clusters.</p>", "links"=>[], "tags"=>["clusters", "differentially", "accumulated", "proteins", "belonging"], "article_id"=>208348, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.t002", "stats"=>{"downloads"=>4, "page_views"=>9, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Hierarchical_clusters_of_differentially_accumulated_seed_proteins_and_distribution_of_the_proteins_belonging_to_each_category_in_different_clusters_/208348", "title"=>"Hierarchical clusters of differentially accumulated seed proteins and distribution of the proteins belonging to each category in different clusters.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-19 19:50:33"}
  • {"files"=>["https://ndownloader.figshare.com/files/537141"], "description"=>"<p>Those spots indicated by arrows were excised from 2-D gels and analyzed by MALDI-TOF MS/MS. 209 proteins spots that have been identified are indexed as numbered, and the complete list of proteins is in the <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0050290#pone-0050290-t001\" target=\"_blank\">Table 1</a>.</p>", "links"=>[], "tags"=>["localization", "proteins"], "article_id"=>207638, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.g002", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_A_representative_image_showing_spot_identification_and_localization_of_proteins_from_developing_Brassica_campestri_L_seeds_/207638", "title"=>"A representative image showing spot identification and localization of proteins from developing <i>Brassica campestri</i> L. seeds.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-19 19:46:40"}
  • {"files"=>["https://ndownloader.figshare.com/files/537821"], "description"=>"<p>List of total 209 seed proteins differentially accumulated over sequential seed development stages in <i>Brassica campestri</i> L.</p>", "links"=>[], "tags"=>["209", "proteins", "differentially", "accumulated", "sequential", "stages"], "article_id"=>208310, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.t001", "stats"=>{"downloads"=>0, "page_views"=>7, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_List_of_total_209_seed_proteins_differentially_accumulated_over_sequential_seed_development_stages_in_Brassica_campestri_L_/208310", "title"=>"List of total 209 seed proteins differentially accumulated over sequential seed development stages in <i>Brassica campestri</i> L.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2013-02-19 19:50:21"}
  • {"files"=>["https://ndownloader.figshare.com/files/536993"], "description"=>"<p>Seed samples were collected at 10 (<b>B</b>), 16 (<b>C</b>), 20 (<b>D</b>), 25 (<b>E</b>) and 35 (<b>F</b>) days after pollination (DAP) respectively (<b>A</b>). Seed development were monitored by observing their embryos that were at globular stage (g), heart stage (h), torpedo stage (t), bended cotyledon stage (b), and mature embryo stage (m), respectively (<b>A</b>). Total seed proteins were separated by 2-DGE with IEF (pH 4–7) and detected by Coomassie Brilliant Blue.</p>", "links"=>[], "tags"=>["gel", "electrophoresis", "proteins"], "article_id"=>207487, "categories"=>["Biochemistry", "Developmental Biology", "Plant Biology"], "users"=>["Wenlan Li", "Yi Gao", "Hong Xu", "Yu Zhang", "Jianbo Wang"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0050290.g001", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Two_dimensional_gel_electrophoresis_analysis_of_proteins_isolated_from_developing_Brassica_campestri_L_seeds_/207487", "title"=>"Two-dimensional gel electrophoresis analysis of proteins isolated from developing <i>Brassica campestri</i> L. seeds.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2013-02-19 19:45:48"}

PMC Usage Stats | Further Information

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  • {"unique-ip"=>"2", "full-text"=>"0", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"1", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"9"}
  • {"unique-ip"=>"2", "full-text"=>"2", "pdf"=>"1", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2018", "month"=>"11"}
  • {"unique-ip"=>"5", "full-text"=>"6", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"2"}
  • {"unique-ip"=>"1", "full-text"=>"1", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"3"}
  • {"unique-ip"=>"4", "full-text"=>"4", "pdf"=>"2", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"4"}
  • {"unique-ip"=>"9", "full-text"=>"6", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"5"}
  • {"unique-ip"=>"8", "full-text"=>"7", "pdf"=>"3", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"8"}
  • {"unique-ip"=>"3", "full-text"=>"3", "pdf"=>"0", "scanned-summary"=>"0", "scanned-page-browse"=>"0", "figure"=>"0", "supp-data"=>"0", "cited-by"=>"0", "year"=>"2019", "month"=>"9"}

Relative Metric

{"start_date"=>"2012-01-01T00:00:00Z", "end_date"=>"2012-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences/Biochemistry", "average_usage"=>[316, 541, 663, 766, 856, 950, 1041, 1128, 1218, 1302, 1382, 1456, 1526, 1593, 1657, 1729, 1796, 1862, 1930, 1999, 2065, 2132, 2202, 2261, 2319]}, {"subject_area"=>"/Biology and life sciences/Developmental biology", "average_usage"=>[313, 562, 690, 796, 893, 986, 1079, 1173, 1257, 1349, 1429, 1506, 1586, 1661, 1730, 1803, 1876, 1945, 2017, 2091, 2163, 2225, 2294, 2362, 2430]}, {"subject_area"=>"/Biology and life sciences/Plant science", "average_usage"=>[329, 543, 667, 773, 865, 963, 1066, 1149, 1233, 1323, 1411, 1500, 1588, 1661, 1732, 1803, 1887, 1978, 2057, 2138, 2203, 2283, 2363, 2419, 2493]}]}
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