Tissue Distribution, Gender- and Genotype-Dependent Expression of Autophagy-Related Genes in Avian Species
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{"title"=>"Tissue distribution, gender-and genotype-dependent expression of autophagy-related genes in avian species", "type"=>"journal", "authors"=>[{"first_name"=>"Alissa", "last_name"=>"Piekarski", "scopus_author_id"=>"56226323800"}, {"first_name"=>"Stephanie", "last_name"=>"Khaldi", "scopus_author_id"=>"56450871200"}, {"first_name"=>"Elizabeth", "last_name"=>"Greene", "scopus_author_id"=>"35310111300"}, {"first_name"=>"Kentu", "last_name"=>"Lassiter", "scopus_author_id"=>"6701432517"}, {"first_name"=>"James G.", "last_name"=>"Mason", "scopus_author_id"=>"56449976200"}, {"first_name"=>"Nicholas", "last_name"=>"Anthony", "scopus_author_id"=>"7006730702"}, {"first_name"=>"Walter", "last_name"=>"Bottje", "scopus_author_id"=>"7006167697"}, {"first_name"=>"Sami", "last_name"=>"Dridi", "scopus_author_id"=>"6603418594"}], "year"=>2014, "source"=>"PLoS ONE", "identifiers"=>{"scopus"=>"2-s2.0-84918837038", "doi"=>"10.1371/journal.pone.0112449", "pui"=>"600653238", "sgr"=>"84918837038", "issn"=>"19326203", "pmid"=>"25386921"}, "id"=>"d827f0a1-2593-3e33-82f6-9acb21a54e67", "abstract"=>"As a result of the genetic selection of broiler (meat-type breeders) chickens for enhanced growth rate and lower feed conversion ratio, it has become necessary to restrict feed intake. When broilers are fed ad libitum, they would become obese and suffer from several health-related problems. A vital adaptation to starvation is autophagy, a self-eating mechanism for recycling cellular constituents. The autophagy pathway has witnessed dramatic growth in the last few years and extensively studied in yeast and mammals however, there is a paucity of information in avian (non-mammalian) species. Here we characterized several genes involved in autophagosome initiation and elongation in Red Jungle fowl (Gallus gallus) and Japanese quail (coturnix coturnix Japonica). Both complexes are ubiquitously expressed in chicken and quail tissues (liver, leg and breast muscle, brain, gizzard, intestine, heart, lung, kidney, adipose tissue, ovary and testis). Alignment analysis showed high similarity (50.7 to 91.5%) between chicken autophagy-related genes and their mammalian orthologs. Phylogenetic analysis demonstrated that the evolutionary relationship between autophagy genes is consistent with the consensus view of vertebrate evolution. Interestingly, the expression of autophagy-related genes is tissue- and gender-dependent. Furthermore, using two experimental male quail lines divergently selected over 40 generations for low (resistant, R) or high (sensitive, S) stress response, we found that the expression of most studied genes are higher in R compared to S line. Together our results indicate that the autophagy pathway is a key molecular signature exhibited gender specific differences and likely plays an important role in response to stress in avian species.", "link"=>"http://www.mendeley.com/research/tissue-distribution-genderand-genotypedependent-expression-autophagyrelated-genes-avian-species", "reader_count"=>7, "reader_count_by_academic_status"=>{"Unspecified"=>1, "Researcher"=>1, "Student > Ph. D. Student"=>3, "Student > Master"=>1, "Student > Bachelor"=>1}, "reader_count_by_user_role"=>{"Unspecified"=>1, "Researcher"=>1, "Student > Ph. D. Student"=>3, "Student > Master"=>1, "Student > Bachelor"=>1}, "reader_count_by_subject_area"=>{"Biochemistry, Genetics and Molecular Biology"=>1, "Agricultural and Biological Sciences"=>4, "Medicine and Dentistry"=>2}, "reader_count_by_subdiscipline"=>{"Medicine and Dentistry"=>{"Medicine and Dentistry"=>2}, "Agricultural and Biological Sciences"=>{"Agricultural and Biological Sciences"=>4}, "Biochemistry, Genetics and Molecular Biology"=>{"Biochemistry, Genetics and Molecular Biology"=>1}}, "reader_count_by_country"=>{"Germany"=>1}, "group_count"=>1}

Scopus | Further Information

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Figshare

  • {"files"=>["https://ndownloader.figshare.com/files/1787879"], "description"=>"<p>Signals were visualized by agarose gel electrophoresis.</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236032, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.g001", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Characterization_of_autophagosome_initiation_a_and_elongation_related_genes_b_in_various_tissues_of_male_and_female_Red_Jungle_Fowl_Gallus_gallus_by_RT_qPCR_as_described_in_materials_and_methods_/1236032", "title"=>"Characterization of autophagosome initiation- (a) and elongation-related genes (b) in various tissues of male and female Red Jungle Fowl (<i>Gallus gallus</i>) by RT-qPCR as described in materials and methods.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-11-11 03:19:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1787880"], "description"=>"<p>Signals were visualized by agarose gel electrophoresis.</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236033, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.g002", "stats"=>{"downloads"=>0, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Characterization_of_autophagosome_initiation_a_and_elongation_related_genes_b_in_various_tissues_of_stress_sensitive_S_and_stress_resistant_R_male_Japonica_quail_Coturnix_coturnix_Japonica_using_RT_qPCR_/1236033", "title"=>"Characterization of autophagosome initiation- (a) and elongation-related genes (b) in various tissues of stress-sensitive (S) and stress-resistant (R) male Japonica quail (<i>Coturnix coturnix Japonica</i>) using RT-qPCR.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-11-11 03:19:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1787881"], "description"=>"<p>Total RNA from each tissue was DNAse-treated, reverse transcribed, and subjected to real-time quantitative PCR as described in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0112449#s2\" target=\"_blank\">material and methods</a>. Samples were run in duplicate, and the average threshold cycle (Ct) values were determined for the target and houskeeping genes. Relative quantity of autophagy genes was determined by the 2<sup>−ΔΔCt</sup> method <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0112449#pone.0112449-Davis1\" target=\"_blank\">[58]</a>. Data are presented as mean ± SEM (n = 6 for each gender and each tissue). * Sex-matched differences among tissues (*<i>P</i><0.05 and **<i>P</i><0.01). Different letters indicate tissue-matched differences among gender (a–e, difference between tissues within female and α-δ indicate differences between male tissues).</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236034, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.g003", "stats"=>{"downloads"=>10, "page_views"=>3, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_relative_expression_of_autophagosome_initiation_related_genes_in_various_tissues_of_male_and_female_Red_Jungle_Fowl_/1236034", "title"=>"Comparison of relative expression of autophagosome initiation-related genes in various tissues of male and female Red Jungle Fowl.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-11-11 03:19:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1787882"], "description"=>"<p>Total RNA from each tissue was DNAse-treated, reverse transcribed, and subjected to real-time quantitative PCR as described in <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0112449#s2\" target=\"_blank\">material and methods</a>. Sample were run in duplicate, and the average threshold cycle (Ct) values were determined for the target and houskeeping genes. Relative quantity of autophagy genes was determined by the 2<sup>−ΔΔCt</sup> method <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0112449#pone.0112449-Davis1\" target=\"_blank\">[58]</a>. Data are presented as mean ± SEM (n = 6 for each gender and each tissue). * Sex-matched differences among tissues (*<i>P</i><0.05 and **<i>P</i><0.01). Different letters indicate tissue-matched differences among gender (a–e, difference between tissues within female and α-δ indicate differences between male tissues).</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236035, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.g004", "stats"=>{"downloads"=>0, "page_views"=>5, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_relative_expression_of_autophagosome_elongation_related_genes_in_various_tissues_of_male_and_female_Red_Jungle_Fowl_/1236035", "title"=>"Comparison of relative expression of autophagosome elongation-related genes in various tissues of male and female Red Jungle Fowl.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-11-11 03:19:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1787889"], "description"=>"<p>Total RNA from each tissue was DNAse-treated, reverse transcribed, and subjected to real-time quantitative PCR. Sample were run in duplicate, and the average threshold cycle (Ct) values were determined for the target and houskeeping genes. Relative quantity of autophagy genes was determined by the 2<sup>−ΔΔCt</sup> method <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0112449#pone.0112449-Davis1\" target=\"_blank\">[58]</a>. Data are presented as mean ± SEM (n = 6 for each line and each tissue). * Line-matched differences among tissues (*<i>P</i><0.05). Different letters indicate tissue-matched differences among Lines (a–c, difference between tissues within R line and α-ε indicate differences between tissues within S line).</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236037, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.g005", "stats"=>{"downloads"=>0, "page_views"=>4, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Relative_expression_of_autophagosome_initiation_related_genes_in_various_tissues_of_R_ans_S_male_Japonica_quail_lines_/1236037", "title"=>"Relative expression of autophagosome initiation-related genes in various tissues of R ans S male Japonica quail lines.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-11-11 03:19:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1787891"], "description"=>"<p>Total RNA from each tissue was DNAse-treated, reverse transcribed, and subjected to real-time quantitative PCR. Sample were run in duplicate, and the average threshold cycle (Ct) values were determined for the target and houskeeping genes. Relative quantity of autophagy genes was determined by the 2<sup>−ΔΔCt</sup> method <a href=\"http://www.plosone.org/article/info:doi/10.1371/journal.pone.0112449#pone.0112449-Davis1\" target=\"_blank\">[58]</a>. Data are presented as mean ± SEM (n = 6 for each line and each tissue). * Genotype-matched differences among tissues (*<i>P</i><0.05 and ***<i>P</i><0.001). Different letters indicate tissue-matched differences among genotype (a, b, difference between tissues within R line and α-β indicate differences between tissues within S line). 28.</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236039, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.g006", "stats"=>{"downloads"=>1, "page_views"=>6, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Comparison_of_relative_expression_of_autophagosome_elongation_related_genes_in_various_tissues_of_R_and_S_male_Japonica_quail_lines_/1236039", "title"=>"Comparison of relative expression of autophagosome elongation-related genes in various tissues of R and S male Japonica quail lines.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2014-11-11 03:19:46"}
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  • {"files"=>["https://ndownloader.figshare.com/files/1787900"], "description"=>"a<p>Accession number refer to Genbank (NCBI).</p><p>Oligonucleotide PCR primers.</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236048, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.t001", "stats"=>{"downloads"=>3, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Oligonucleotide_PCR_primers_/1236048", "title"=>"Oligonucleotide PCR primers.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-11-11 03:19:46"}
  • {"files"=>["https://ndownloader.figshare.com/files/1787901"], "description"=>"<p>Genbank accession number is indicated for each gene and each species between brackets.</p><p>Multiple alignment of the amino acid sequences of chicken autophagy-related genes with their mammalian orthologs.</p>", "links"=>[], "tags"=>["Red Jungle fowl", "broiler", "coturnix coturnix Japonica", "quail lines divergently", "gene", "expression", "feed conversion ratio", "response", "autophagy pathway", "tissue", "species", "stress", "analysis"], "article_id"=>1236049, "categories"=>["Biological Sciences"], "users"=>["Alissa Piekarski", "Stephanie Khaldi", "Elizabeth Greene", "Kentu Lassiter", "James G. Mason", "Nicholas Anthony", "Walter Bottje", "Sami Dridi"], "doi"=>"https://dx.doi.org/10.1371/journal.pone.0112449.t002", "stats"=>{"downloads"=>0, "page_views"=>8, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Multiple_alignment_of_the_amino_acid_sequences_of_chicken_autophagy_related_genes_with_their_mammalian_orthologs_/1236049", "title"=>"Multiple alignment of the amino acid sequences of chicken autophagy-related genes with their mammalian orthologs.", "pos_in_sequence"=>0, "defined_type"=>3, "published_date"=>"2014-11-11 03:19:46"}

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Relative Metric

{"start_date"=>"2014-01-01T00:00:00Z", "end_date"=>"2014-12-31T00:00:00Z", "subject_areas"=>[{"subject_area"=>"/Biology and life sciences/Agriculture", "average_usage"=>[282]}, {"subject_area"=>"/Medicine and health sciences", "average_usage"=>[285]}]}
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