热带作物学报

甘蔗野生种割手密的PIF基因家族鉴定与表达分析

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王郑 ¹^,²^,³ , 王文治 ²^,³ , 王鹏 ¹ , 孙婷婷 ²^,³ , 熊国如 ²^,³ , 张树珍 ²^,³ , 何美丹 ¹^,^* , 沈林波 ²^,³^,^*

热带作物学报 | 甘蔗高效育种和绿色栽培专题 2026,47(1): 32-42

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热带作物学报 |甘蔗高效育种和绿色栽培专题 2026 , 47 (1) : 32 -42

甘蔗野生种割手密的PIF基因家族鉴定与表达分析

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王郑¹^,²^,³, 王文治²^,³, 王鹏¹, 孙婷婷²^,³, 熊国如²^,³, 张树珍²^,³, 何美丹¹^,^*, 沈林波²^,³^,^*

作者信息

^1.海南大学热带农林学院/热带作物生物育种全国重点实验室，海南海口　570223

^2.中国热带农业科学院热带生物技术研究所，海南海口　571101

^3.中国热带农业科学院三亚研究院，海南三亚　572024

通讯作者:

^* 何美丹（HE Meidan），E-mail: hemeidan@hainanu.edu.cn

沈林波（SHEN Linbo），E-mail: shenlinbo@itbb.org.cn。

Identification and Expression Analysis of the PIF Gene Family in Wild Saccharum spontaneum L.

Zheng WANG¹^,²^,³, Wenzhi WANG²^,³, Peng WANG¹, Tingting SUN²^,³, Guoru XIONG²^,³, Shuzhen ZHANG²^,³, Meidan HE¹^,^*, Linbo SHEN²^,³^,^*

Affiliations

^1.School of Tropical Agriculture and Forestry, Hainan University / National Key Laboratory of Tropical Crop Breeding, Haikou, Hainan 570223, China

^2.Institute of Tropical Bioscience and Biotechnology, Chinese Academy of Tropical Agricultural Sciences, Haikou, Hainan 571101, China

^3.Sanya Research Institute, Chinese Academy of Tropical Agricultural Sciences, Sanya, Hainan 572024, China

出版时间: 2026-01-25 doi: 10.3969/j.issn.1000-2561.2026.01.004

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摘要

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光敏色素作用因子（phytochrome interacting factors, PIFs）是调控植物光形态建成的关键转录因子，在植物生长发育及逆境响应过程中具有重要作用。目前，PIF基因已在多种植物中得到鉴定，但尚无关于甘蔗近缘野生种割手密（Saccharum spontaneum L.）SsPIF基因家族成员的系统鉴定与分析的报道。本研究对甘蔗近缘野生种割手密SsPIF基因家族进行鉴定，系统分析SsPIF家族基因的蛋白理化性质、染色体定位、物种内及物种间共线性比较及启动子顺式作用元件等特征，并利用荧光定量PCR技术（qRT-PCR）分析SsPIF基因在甘蔗不同组织及3种植物激素处理下的表达模式。结果显示：从割手密全基因组中鉴定出12个SsPIF基因，编码的氨基酸数量在435~765之间，分子质量范围为48.14~83.91 kDa；等电点（pI）在5.59~6.97之间，大多数等电点接近中性，少数偏向酸性或碱性；亚细胞定位发现所有SsPIF蛋白均定位在细胞核；染色体定位分析显示SsPIF不均匀地分布在10条染色体上；多序列比对结果表明SsPIF家族成员均存在bHLH和APB保守结构域，其中SsPIF3亚组存在特有的APA结构域；物种间共线性显示SsPIF在水稻中存在14对同源基因；启动子区域分析表明SsPIF基因富含光响应、激素响应与逆境响应元件；SsPIF基因的表达具有组织特异性，与割手密的生长发育相关。本研究结果为进一步探究SsPIF基因家族在割手密的生长发育调控和信号转导通路中的功能奠定基础。

关键词

割手密 / SsPIF / 基因家族 / 生物信息学 / 表达分析

Abstract

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Phytochrome-interacting factors (PIFs) are key transcription factors that regulate plant photomorphogenesis and play important roles in plant growth, development, and responses to environmental stresses. To date, PIF gene family have been identified in many plant species; however, systematic identification and analysis of the PIF gene family in Saccharum spontaneum L., a wild relative of sugarcane, have not yet been reported. In this study, the PIF gene family in S. spontaneum (SsPIF) was identified, and comprehensive analyses were conducted on the physicochemical properties of the encoded proteins,chromosomal localization, intra- and interspecific synteny relationships, and cis-acting elements in promoter regions. In addition, quantitative real-time PCR (qRT-PCR) was used to analyze the expression patterns of SsPIF genes in different tissues of sugarcane and under three plant hormone treatments. The results showed that 12 SsPIF gene were identified from the S. spontaneum genome. These genes encode proteins ranging from 435 to 765 amino acids in length, with molecular weights between 48.14‒83.91 kDa. The predicted isoelectric points (pI) ranged from 5.59 to 6.97; most SsPIF proteins had pI values close to neutral, while a few tended to be acidic or basic. Subcellular localization analysis indicated that all SsPIF proteins are localized in the nucleus. Chromosomal mapping revealed that the SsPIF genes are unevenly distributed across 10 chromosomes. Multiple sequence alignment demonstrated that all SsPIF family members contain conserved basic helix–loop–helix (bHLH) and APB domains, while members of the SsPIF3 subgroup possess a unique APA domain. Comparative synteny analysis showed that fourteen orthologous gene pairs exist between S. spontaneum and rice. Promoter analysis revealed that SsPIF genes are enriched in cis-acting elements related to light responsiveness, hormone signaling, and stress responses. The expression profiles of SsPIF genes exhibited clear tissue specificity, indicating their involvement in the growth and development of S. spontaneum. Furthermore, qRT-PCR analysis revealed distinct expression patterns of the twelve SsPIF genes in response to methyl jasmonate, gibberellin, and auxin treatments. Overall, these findings provide a solid foundation for further functional characterization of the SsPIF gene family and for elucidating their roles in regulating growth, development, and signal transduction pathways in S. spontaneum.

Key words

Saccharum spontaneum L / SsPIF / gene family / bioinformatics / expression analysis

引用本文

王郑, 王文治, 王鹏, 孙婷婷, 熊国如, 张树珍, 何美丹, 沈林波. 甘蔗野生种割手密的PIF基因家族鉴定与表达分析. 热带作物学报, 2026 , 47 (1) : 32 -42 . DOI: 10.3969/j.issn.1000-2561.2026.01.004

Zheng WANG, Wenzhi WANG, Peng WANG, Tingting SUN, Guoru XIONG, Shuzhen ZHANG, Meidan HE, Linbo SHEN. Identification and Expression Analysis of the PIF Gene Family in Wild Saccharum spontaneum L.[J]. Chinese Journal of Tropical Crops, 2026 , 47 (1) : 32 -42 . DOI: 10.3969/j.issn.1000-2561.2026.01.004

基金

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海南省自然科学基金面上项目(323MS103)
国家糖料产业技术体系项目(CARS-17)
海南省自然科学基金青年基金项目(321QN313)

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2026年第47卷第1期

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文章信息

doi: 10.3969/j.issn.1000-2561.2026.01.004

接收时间：2025-08-20
首发时间：2026-06-26
出版时间：2026-01-25

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收稿日期：2025-08-20
录用日期：2025-09-02

基金

海南省自然科学基金面上项目(323MS103)

国家糖料产业技术体系项目(CARS-17)

海南省自然科学基金青年基金项目(321QN313)

作者信息

^1.海南大学热带农林学院/热带作物生物育种全国重点实验室，海南海口　570223

^2.中国热带农业科学院热带生物技术研究所，海南海口　571101

^3.中国热带农业科学院三亚研究院，海南三亚　572024

通讯作者:

^* 何美丹（HE Meidan），E-mail: hemeidan@hainanu.edu.cn

沈林波（SHEN Linbo），E-mail: shenlinbo@itbb.org.cn。

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https://castjournals.cast.org.cn/joweb/rdzwxb/CN/10.3969/j.issn.1000-2561.2026.01.004

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2种不同金属材料的力学参数

科 Family	属数 Number of genus	种数 Number of species	占总种数比例 Percentage of total species (%)	属 Genus	种数 Number of species	占总种数比例 Percentage of total species (%)
鹅膏菌科Amanitaceae	2	11	5.26	鹅膏菌属 Amanita	10	4.78
小菇科 Mycenaceae	2	12	5.74	丝盖伞属 Inocybe	5	2.39
多孔菌科 Polyporaceae	8	14	6.70	蜡蘑属 Laccaria	5	2.39
红菇科 Russulaceae	3	23	11.00	小皮伞属 Marasmius	6	2.87
				小菇属 Mycena	11	5.26
				光柄菇属 Pluteus	5	2.39
				红菇属 Russula	17	8.13
				栓菌属 Trametes	5	2.39

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