Gap-free genome assemblies of two Pyrus bretschneideri cultivars and GWAS analyses identify a CCCH zinc finger protein as a key regulator of stone cell formation in pear fruit

被引：1

作者：

Cao, Yunpeng ^{[1
]}

Feng, Xiaofeng ^{[2
]}

Ding, Baopeng ^{[13
,14
]}

Huo, Heqiang ^{[15
]}

Abdullah, Muhammad ^{[16
]}

Hong, Jiayi ^{[2
]}

Jiang, Lan ^{[4
]}

Wang, Han ^{[5
]}

Li, Risheng ^{[7
,8
,9
,10
]}

Cai, Yongping ^{[2
]}

Li, Xiaoxu ^{[3
]}

Xia, Zhichao ^{[6
]}

Varshney, Rajeev K. ^{[17
]}

Hu, Haifei ^{[7
,8
,9
,10
]}

Lin, Mengfei ^{[11
]}

Shen, Fei ^{[12
]}

机构：

[1] Chinese Acad Sci, CAS Key Lab Plant Germplasm Enhancement & Specialt, Wuhan Bot Garden, Wuhan 430074, Peoples R China

[2] Anhui Agr Univ, Coll Life Sci, Hefei 230036, Peoples R China

[3] Beijing Life Sci Acad, Beijing 102209, Peoples R China

[4] Yijishan Hosp, Wannan Med Coll, Anhui Higher Educ Inst, Key Lab Noncoding RNA Transformat Res, Wuhu 241000, Peoples R China

[5] Anhui Acad Agr Sci, Inst Hort, Key Lab Hort Crop Germplasm Innovat & Utilizat, Coconstruct Minist & Prov, Hefei 230000, Peoples R China

[6] Anhui Agr Univ, Sch Forestry & Landscape Architecture, Hefei 230036, Peoples R China

[7] Minist Agr & Rural Affairs, Rice Res Inst, Guangdong Acad Agr Sci, Guangzhou 510640, Peoples R China

[8] Minist Agr & Rural Affairs, Coconstruct Minist & Prov, Key Lab Genet & Breeding High Qual Rice Southern C, Guangzhou 510640, Peoples R China

[9] Guangdong Key Lab New Technol Rice Breeding, Guangzhou 510640, Peoples R China

[10] Guangdong Rice Engn Lab, Guangzhou 510640, Peoples R China

[11] Jiangxi Acad Sci, Inst Biol Resources, Jiangxi Prov Key Lab Plantat & High Valued Utiliza, Nanchang, Jiangxi, Peoples R China

[12] Beijing Acad Agr & Forestry Sci, Inst Biotechnol, Beijing 100097, Peoples R China

[13] Shanxi Datong Univ, Engn Res Ctr, Coal Based Ecol Carbon Sequestrat Technol Minist E, Datong 037009, Peoples R China

[14] Shanxi Datong Univ, Key Lab Natl Forest & Grass Adm Applicat Graphene, Datong 037009, Peoples R China

[15] Univ Florida, Mid Florida Res & Educ Ctr, Dept Environm Hort, Apopka, FL 32703 USA

[16] Univ Queensland, Queensland Alliance Agr & Food Innovat, 7 Brisbane, Brisbane, Qld, Australia

[17] Murdoch Univ, Food Futures Inst, WA State Agr Biotechnol Ctr, Ctr Crop & Food Innovat, Murdoch, WA, Australia

来源：

PLANT COMMUNICATIONS | 2025年 / 6卷 / 03期

基金：

中国国家自然科学基金;

关键词：

Pyrus bretschneideri; gap-free genome; stone cell formation; GWAS; transcriptional regulation; PHYLOGENETIC ANALYSIS; BIOSYNTHETIC-PATHWAY; LIGNIN; IDENTIFICATION; ARABIDOPSIS; STRINGTIE; ACCURATE;

D O I：

10.1016/j.xplc.2024.101238

中图分类号：

Q5 [生物化学]; Q7 [分子生物学];

学科分类号：

071010 ; 081704 ;

摘要：

The Chinese white pear (Pyrus bretschneideri) is an economically significant fruit crop worldwide. Previous versions of the P. bretschneideri genome assembly contain numerous gaps and unanchored genetic regions. Here, we generated two high-quality, gap-free genome assemblies for 'Dangshansu' (DS; 503.92 Mb) and 'Lianglizaosu' (ZS; 509.01 Mb), each anchored to 17 chromosomes, achieving a benchmarking universal single-copy ortholog completeness score of nearly 99.0%. Our genome-wide association studies explored the associations between genetic variations and stone cell traits, revealing a significant association peak on DS chromosome 3 and identifying a novel non-tandem CCCH-type zinc finger gene, designated PbdsZF. Through genetic transformation, we verified the pivotal role of PbdsZF in regulation of both lignin biosynthesis and stone cell formation, as it transcriptionally activates multiple genes involved in these processes. By binding to the CT-rich motifs CT1 (CTTTTTTCT) and CT2 (CTCTTTTT), PbdsZF significantly influences the transcription of genes essential for lignin production, underscoring its regulatory importance in plant lignin metabolism. Our study illuminates the complex biology of fruit development and delineates the gene regulatory networks that influence stone cell and lignocellulose formation, thereby enriching genetic resources and laying the groundwork for the molecular breeding of perennial trees.

引用

页数：17