Genome-Wide Identification of the KNOX Gene Family in Japanese Apricot ( Prunus mume Sieb. et Zucc.) and Functional Characterization of PmKNAT2 Genes
The gene is crucial for plant morphological development and growth. Physicochemical characteristics, phylogenetic relationships, chromosomal localization, cis-acting elements, and tissue-specific expression patterns of the 11 genes found in the Japanese apricot genome in this study were examined. Pr...
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| Veröffentlicht in: | Genes 2023-04, Vol.14 (4), p.939 |
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| creator | Bai, Yang Shi, Ting Huang, Xiao Zhou, Pengyu Ouma, Kenneth Omondi Ni, Zhaojun Gao, Feng Tan, Wei Ma, Chengdong Ma, Yufan Gao, Zhihong |
| description | The
gene is crucial for plant morphological development and growth. Physicochemical characteristics, phylogenetic relationships, chromosomal localization, cis-acting elements, and tissue-specific expression patterns of the 11
genes found in the Japanese apricot genome in this study were examined. Proteins of 11
were soluble proteins with isoelectric points between 4.29 and 6.53, molecular masses between 15.732 and 44.011 kDa, and amino acid counts between 140 and 430. The identified
gene family was split into three subfamilies by jointly constructing the phylogenetic tree of KNOX proteins in Japanese apricot and
. Combined outcomes of the analyzed conserved motifs and gene structures of the 11
genes from the same subfamily displayed comparable gene structure and motif patterns. The 11
members were distributed across six chromosomes, while two sets of
genes were found to be collinear. Analysis of the 2000 bp promoter upstream of the coding region of the
gene revealed that most
genes might be involved in the physiological metabolism, growth and development processes of plants. The
gene expression profile revealed that these genes were expressed at varying levels in different tissues, and most of them were linked to the meristems of leaf and flower buds, suggesting that
may be involved in plants' apical meristems. In
, functional validation of
and
revealed that these two genes might be involved in regulating leaf and stem development. In addition to laying the groundwork for future research on the function of these genes, understanding the evolutionary relationships between members of the
gene family provides opportunities for future breeding in Japanese apricots. |
| doi_str_mv | 10.3390/genes14040939 |
| format | Article |
| fullrecord | <record><control><sourceid>proquest_pubme</sourceid><recordid>TN_cdi_pubmedcentral_primary_oai_pubmedcentral_nih_gov_10138190</recordid><sourceformat>XML</sourceformat><sourcesystem>PC</sourcesystem><sourcerecordid>2806545503</sourcerecordid><originalsourceid>FETCH-LOGICAL-c372t-a4d87b988c171807f585192518fb6182f8446ddf1a5a09c3314f46c76478d393</originalsourceid><addsrcrecordid>eNpdkU9vFCEYxonR2Kb26NWQeKmHWWGAAU5ms3FrbdM2cRONF8Iy0KWZgS0MJvV7-H2lf9y0coGEX57nfd4HgLcYzQiR6OOVDTZjiiiSRL4A-y3ipKG0ZS-fvPfAYc7XqB6KWoTYa7BHOEa8k3wf_Dm2IY62-e57C096GybvvNGTjwFGB6eNhafnFz9gxSxc6tEPt9AH-FVvdbW2cL5N3sQJHsHLVELJcCyjhd-8Xc-gneDPYszsA9Shh8sSzJ2sHuBio5M2k03-987pcjw9n6_ae6P8Brxyesj28PE-AKvl59XiS3N2cXyymJ81hvB2ajTtBV9LIQzmWCDumGBYtgwLt-6waJ2gtOt7hzXTSBpCMHW0M7yjXPREkgPw6UF2W9aj7U1Nn_SgaqRRp1sVtVfPf4LfqKv4S2GEicASVYWjR4UUb4rNkxp9NnYY6nZiyaqtU0nMBWEVff8feh1Lquu4pzpGGUOkUs0DZVLMOVm3mwYjdde5etZ55d89jbCj_zVM_gIUQKZy</addsrcrecordid><sourcetype>Open Access Repository</sourcetype><iscdi>true</iscdi><recordtype>article</recordtype><pqid>2806545503</pqid></control><display><type>article</type><title>Genome-Wide Identification of the KNOX Gene Family in Japanese Apricot ( Prunus mume Sieb. et Zucc.) and Functional Characterization of PmKNAT2 Genes</title><source>MEDLINE</source><source>Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals</source><source>PubMed Central Open Access</source><source>MDPI - Multidisciplinary Digital Publishing Institute</source><source>PubMed Central</source><creator>Bai, Yang ; Shi, Ting ; Huang, Xiao ; Zhou, Pengyu ; Ouma, Kenneth Omondi ; Ni, Zhaojun ; Gao, Feng ; Tan, Wei ; Ma, Chengdong ; Ma, Yufan ; Gao, Zhihong</creator><creatorcontrib>Bai, Yang ; Shi, Ting ; Huang, Xiao ; Zhou, Pengyu ; Ouma, Kenneth Omondi ; Ni, Zhaojun ; Gao, Feng ; Tan, Wei ; Ma, Chengdong ; Ma, Yufan ; Gao, Zhihong</creatorcontrib><description>The
gene is crucial for plant morphological development and growth. Physicochemical characteristics, phylogenetic relationships, chromosomal localization, cis-acting elements, and tissue-specific expression patterns of the 11
genes found in the Japanese apricot genome in this study were examined. Proteins of 11
were soluble proteins with isoelectric points between 4.29 and 6.53, molecular masses between 15.732 and 44.011 kDa, and amino acid counts between 140 and 430. The identified
gene family was split into three subfamilies by jointly constructing the phylogenetic tree of KNOX proteins in Japanese apricot and
. Combined outcomes of the analyzed conserved motifs and gene structures of the 11
genes from the same subfamily displayed comparable gene structure and motif patterns. The 11
members were distributed across six chromosomes, while two sets of
genes were found to be collinear. Analysis of the 2000 bp promoter upstream of the coding region of the
gene revealed that most
genes might be involved in the physiological metabolism, growth and development processes of plants. The
gene expression profile revealed that these genes were expressed at varying levels in different tissues, and most of them were linked to the meristems of leaf and flower buds, suggesting that
may be involved in plants' apical meristems. In
, functional validation of
and
revealed that these two genes might be involved in regulating leaf and stem development. In addition to laying the groundwork for future research on the function of these genes, understanding the evolutionary relationships between members of the
gene family provides opportunities for future breeding in Japanese apricots.</description><identifier>ISSN: 2073-4425</identifier><identifier>EISSN: 2073-4425</identifier><identifier>DOI: 10.3390/genes14040939</identifier><identifier>PMID: 37107697</identifier><language>eng</language><publisher>Switzerland: MDPI AG</publisher><subject>Amino acids ; Arabidopsis - genetics ; Arabidopsis thaliana ; Chromosomes ; Flowers & plants ; Fruits ; Gene expression ; Genes ; Genomes ; Homeobox ; Isoelectric points ; KNOX gene ; Leaves ; Localization ; Meristems ; Morphogenesis ; Phylogenetics ; Phylogeny ; Plant Breeding ; Plant growth ; Proteins ; Prunus - genetics ; Prunus armeniaca ; Prunus mume ; Seeds</subject><ispartof>Genes, 2023-04, Vol.14 (4), p.939</ispartof><rights>2023 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License.</rights><rights>2023 by the authors. 2023</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><cites>FETCH-LOGICAL-c372t-a4d87b988c171807f585192518fb6182f8446ddf1a5a09c3314f46c76478d393</cites><orcidid>0009-0001-5387-9114</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC10138190/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC10138190/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,727,780,784,885,27924,27925,53791,53793</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/37107697$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><creatorcontrib>Bai, Yang</creatorcontrib><creatorcontrib>Shi, Ting</creatorcontrib><creatorcontrib>Huang, Xiao</creatorcontrib><creatorcontrib>Zhou, Pengyu</creatorcontrib><creatorcontrib>Ouma, Kenneth Omondi</creatorcontrib><creatorcontrib>Ni, Zhaojun</creatorcontrib><creatorcontrib>Gao, Feng</creatorcontrib><creatorcontrib>Tan, Wei</creatorcontrib><creatorcontrib>Ma, Chengdong</creatorcontrib><creatorcontrib>Ma, Yufan</creatorcontrib><creatorcontrib>Gao, Zhihong</creatorcontrib><title>Genome-Wide Identification of the KNOX Gene Family in Japanese Apricot ( Prunus mume Sieb. et Zucc.) and Functional Characterization of PmKNAT2 Genes</title><title>Genes</title><addtitle>Genes (Basel)</addtitle><description>The
gene is crucial for plant morphological development and growth. Physicochemical characteristics, phylogenetic relationships, chromosomal localization, cis-acting elements, and tissue-specific expression patterns of the 11
genes found in the Japanese apricot genome in this study were examined. Proteins of 11
were soluble proteins with isoelectric points between 4.29 and 6.53, molecular masses between 15.732 and 44.011 kDa, and amino acid counts between 140 and 430. The identified
gene family was split into three subfamilies by jointly constructing the phylogenetic tree of KNOX proteins in Japanese apricot and
. Combined outcomes of the analyzed conserved motifs and gene structures of the 11
genes from the same subfamily displayed comparable gene structure and motif patterns. The 11
members were distributed across six chromosomes, while two sets of
genes were found to be collinear. Analysis of the 2000 bp promoter upstream of the coding region of the
gene revealed that most
genes might be involved in the physiological metabolism, growth and development processes of plants. The
gene expression profile revealed that these genes were expressed at varying levels in different tissues, and most of them were linked to the meristems of leaf and flower buds, suggesting that
may be involved in plants' apical meristems. In
, functional validation of
and
revealed that these two genes might be involved in regulating leaf and stem development. In addition to laying the groundwork for future research on the function of these genes, understanding the evolutionary relationships between members of the
gene family provides opportunities for future breeding in Japanese apricots.</description><subject>Amino acids</subject><subject>Arabidopsis - genetics</subject><subject>Arabidopsis thaliana</subject><subject>Chromosomes</subject><subject>Flowers & plants</subject><subject>Fruits</subject><subject>Gene expression</subject><subject>Genes</subject><subject>Genomes</subject><subject>Homeobox</subject><subject>Isoelectric points</subject><subject>KNOX gene</subject><subject>Leaves</subject><subject>Localization</subject><subject>Meristems</subject><subject>Morphogenesis</subject><subject>Phylogenetics</subject><subject>Phylogeny</subject><subject>Plant Breeding</subject><subject>Plant growth</subject><subject>Proteins</subject><subject>Prunus - genetics</subject><subject>Prunus armeniaca</subject><subject>Prunus mume</subject><subject>Seeds</subject><issn>2073-4425</issn><issn>2073-4425</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2023</creationdate><recordtype>article</recordtype><sourceid>EIF</sourceid><sourceid>ABUWG</sourceid><sourceid>AFKRA</sourceid><sourceid>AZQEC</sourceid><sourceid>BENPR</sourceid><sourceid>CCPQU</sourceid><sourceid>DWQXO</sourceid><sourceid>GNUQQ</sourceid><recordid>eNpdkU9vFCEYxonR2Kb26NWQeKmHWWGAAU5ms3FrbdM2cRONF8Iy0KWZgS0MJvV7-H2lf9y0coGEX57nfd4HgLcYzQiR6OOVDTZjiiiSRL4A-y3ipKG0ZS-fvPfAYc7XqB6KWoTYa7BHOEa8k3wf_Dm2IY62-e57C096GybvvNGTjwFGB6eNhafnFz9gxSxc6tEPt9AH-FVvdbW2cL5N3sQJHsHLVELJcCyjhd-8Xc-gneDPYszsA9Shh8sSzJ2sHuBio5M2k03-987pcjw9n6_ae6P8Brxyesj28PE-AKvl59XiS3N2cXyymJ81hvB2ajTtBV9LIQzmWCDumGBYtgwLt-6waJ2gtOt7hzXTSBpCMHW0M7yjXPREkgPw6UF2W9aj7U1Nn_SgaqRRp1sVtVfPf4LfqKv4S2GEicASVYWjR4UUb4rNkxp9NnYY6nZiyaqtU0nMBWEVff8feh1Lquu4pzpGGUOkUs0DZVLMOVm3mwYjdde5etZ55d89jbCj_zVM_gIUQKZy</recordid><startdate>20230418</startdate><enddate>20230418</enddate><creator>Bai, Yang</creator><creator>Shi, Ting</creator><creator>Huang, Xiao</creator><creator>Zhou, Pengyu</creator><creator>Ouma, Kenneth Omondi</creator><creator>Ni, Zhaojun</creator><creator>Gao, Feng</creator><creator>Tan, Wei</creator><creator>Ma, Chengdong</creator><creator>Ma, Yufan</creator><creator>Gao, Zhihong</creator><general>MDPI AG</general><general>MDPI</general><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>8FD</scope><scope>8FE</scope><scope>8FH</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BHPHI</scope><scope>CCPQU</scope><scope>DWQXO</scope><scope>FR3</scope><scope>GNUQQ</scope><scope>HCIFZ</scope><scope>LK8</scope><scope>M7P</scope><scope>P64</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>PRINS</scope><scope>RC3</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0009-0001-5387-9114</orcidid></search><sort><creationdate>20230418</creationdate><title>Genome-Wide Identification of the KNOX Gene Family in Japanese Apricot ( Prunus mume Sieb. et Zucc.) and Functional Characterization of PmKNAT2 Genes</title><author>Bai, Yang ; Shi, Ting ; Huang, Xiao ; Zhou, Pengyu ; Ouma, Kenneth Omondi ; Ni, Zhaojun ; Gao, Feng ; Tan, Wei ; Ma, Chengdong ; Ma, Yufan ; Gao, Zhihong</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c372t-a4d87b988c171807f585192518fb6182f8446ddf1a5a09c3314f46c76478d393</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2023</creationdate><topic>Amino acids</topic><topic>Arabidopsis - genetics</topic><topic>Arabidopsis thaliana</topic><topic>Chromosomes</topic><topic>Flowers & plants</topic><topic>Fruits</topic><topic>Gene expression</topic><topic>Genes</topic><topic>Genomes</topic><topic>Homeobox</topic><topic>Isoelectric points</topic><topic>KNOX gene</topic><topic>Leaves</topic><topic>Localization</topic><topic>Meristems</topic><topic>Morphogenesis</topic><topic>Phylogenetics</topic><topic>Phylogeny</topic><topic>Plant Breeding</topic><topic>Plant growth</topic><topic>Proteins</topic><topic>Prunus - genetics</topic><topic>Prunus armeniaca</topic><topic>Prunus mume</topic><topic>Seeds</topic><toplevel>peer_reviewed</toplevel><toplevel>online_resources</toplevel><creatorcontrib>Bai, Yang</creatorcontrib><creatorcontrib>Shi, Ting</creatorcontrib><creatorcontrib>Huang, Xiao</creatorcontrib><creatorcontrib>Zhou, Pengyu</creatorcontrib><creatorcontrib>Ouma, Kenneth Omondi</creatorcontrib><creatorcontrib>Ni, Zhaojun</creatorcontrib><creatorcontrib>Gao, Feng</creatorcontrib><creatorcontrib>Tan, Wei</creatorcontrib><creatorcontrib>Ma, Chengdong</creatorcontrib><creatorcontrib>Ma, Yufan</creatorcontrib><creatorcontrib>Gao, Zhihong</creatorcontrib><collection>Medline</collection><collection>MEDLINE</collection><collection>MEDLINE (Ovid)</collection><collection>MEDLINE</collection><collection>MEDLINE</collection><collection>PubMed</collection><collection>CrossRef</collection><collection>Technology Research Database</collection><collection>ProQuest SciTech Collection</collection><collection>ProQuest Natural Science Collection</collection><collection>ProQuest Central (Alumni Edition)</collection><collection>ProQuest Central UK/Ireland</collection><collection>ProQuest Central Essentials</collection><collection>Biological Science Collection</collection><collection>ProQuest Central</collection><collection>Natural Science Collection</collection><collection>ProQuest One Community College</collection><collection>ProQuest Central Korea</collection><collection>Engineering Research Database</collection><collection>ProQuest Central Student</collection><collection>SciTech Premium Collection</collection><collection>ProQuest Biological Science Collection</collection><collection>Biological Science Database</collection><collection>Biotechnology and BioEngineering Abstracts</collection><collection>Publicly Available Content Database</collection><collection>ProQuest One Academic Eastern Edition (DO NOT USE)</collection><collection>ProQuest One Academic</collection><collection>ProQuest One Academic UKI Edition</collection><collection>ProQuest Central China</collection><collection>Genetics Abstracts</collection><collection>MEDLINE - Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>Genes</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Bai, Yang</au><au>Shi, Ting</au><au>Huang, Xiao</au><au>Zhou, Pengyu</au><au>Ouma, Kenneth Omondi</au><au>Ni, Zhaojun</au><au>Gao, Feng</au><au>Tan, Wei</au><au>Ma, Chengdong</au><au>Ma, Yufan</au><au>Gao, Zhihong</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>Genome-Wide Identification of the KNOX Gene Family in Japanese Apricot ( Prunus mume Sieb. et Zucc.) and Functional Characterization of PmKNAT2 Genes</atitle><jtitle>Genes</jtitle><addtitle>Genes (Basel)</addtitle><date>2023-04-18</date><risdate>2023</risdate><volume>14</volume><issue>4</issue><spage>939</spage><pages>939-</pages><issn>2073-4425</issn><eissn>2073-4425</eissn><abstract>The
gene is crucial for plant morphological development and growth. Physicochemical characteristics, phylogenetic relationships, chromosomal localization, cis-acting elements, and tissue-specific expression patterns of the 11
genes found in the Japanese apricot genome in this study were examined. Proteins of 11
were soluble proteins with isoelectric points between 4.29 and 6.53, molecular masses between 15.732 and 44.011 kDa, and amino acid counts between 140 and 430. The identified
gene family was split into three subfamilies by jointly constructing the phylogenetic tree of KNOX proteins in Japanese apricot and
. Combined outcomes of the analyzed conserved motifs and gene structures of the 11
genes from the same subfamily displayed comparable gene structure and motif patterns. The 11
members were distributed across six chromosomes, while two sets of
genes were found to be collinear. Analysis of the 2000 bp promoter upstream of the coding region of the
gene revealed that most
genes might be involved in the physiological metabolism, growth and development processes of plants. The
gene expression profile revealed that these genes were expressed at varying levels in different tissues, and most of them were linked to the meristems of leaf and flower buds, suggesting that
may be involved in plants' apical meristems. In
, functional validation of
and
revealed that these two genes might be involved in regulating leaf and stem development. In addition to laying the groundwork for future research on the function of these genes, understanding the evolutionary relationships between members of the
gene family provides opportunities for future breeding in Japanese apricots.</abstract><cop>Switzerland</cop><pub>MDPI AG</pub><pmid>37107697</pmid><doi>10.3390/genes14040939</doi><orcidid>https://orcid.org/0009-0001-5387-9114</orcidid><oa>free_for_read</oa></addata></record> |
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| source | MEDLINE; Elektronische Zeitschriftenbibliothek - Frei zugängliche E-Journals; PubMed Central Open Access; MDPI - Multidisciplinary Digital Publishing Institute; PubMed Central |
| subjects | Amino acids Arabidopsis - genetics Arabidopsis thaliana Chromosomes Flowers & plants Fruits Gene expression Genes Genomes Homeobox Isoelectric points KNOX gene Leaves Localization Meristems Morphogenesis Phylogenetics Phylogeny Plant Breeding Plant growth Proteins Prunus - genetics Prunus armeniaca Prunus mume Seeds |
| title | Genome-Wide Identification of the KNOX Gene Family in Japanese Apricot ( Prunus mume Sieb. et Zucc.) and Functional Characterization of PmKNAT2 Genes |
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