园艺学报 ›› 2025, Vol. 52 ›› Issue (6): 1488-1504.doi: 10.16420/j.issn.0513-353x.2024-0373
陈敏氡, 王彬, 白昌辉, 裘波音, 刘建汀, 温庆放, 朱海生*(), 李永平*(
)
收稿日期:
2025-02-06
修回日期:
2025-03-14
出版日期:
2025-06-20
发布日期:
2025-06-20
通讯作者:
基金资助:
CHEN Mindong, WANG Bin, BAI Changhui, QIU Boyin, LIU Jianting, WEN Qingfang, ZHU Haisheng*(), and LI Yongping*(
)
Received:
2025-02-06
Revised:
2025-03-14
Published:
2025-06-20
Online:
2025-06-20
摘要:
为揭示普通丝瓜(Luffa cylindrica)扩展蛋白(Expansin)家族基因的组成、结构和进化过程以及在果实膨大中的作用,利用生物信息技术从普通丝瓜基因组中鉴定出50个Expansin基因,分属于EXPA(18个)、EXPB(3个)、EXLA(27个)和EXLB(2个)4个亚家族,其中EXLA亚家族发生4对基因串联复制和6对基因片段复制,导致该亚家族基因数量明显扩增。系统发育树显示,4个亚家族成员各自聚集成群,且与同科的黄瓜亲缘关系较近。基因结构和保守基序分析显示,4个亚家族的外显子—内含子结构和保守基序种类及分布在进化上趋于保守,可以作为亚家族分型的重要依据。启动子元件预测分析发现,Expansin基因启动子中含有大量的光诱导、厌氧诱导、茉莉酸甲酯和脱落酸元件,而数量最多的光诱导元件只在EXLA/EXLB亚家族预测到。基于RNA-seq数据筛选出8个与果实横纵径发育极显著正相关的Expansin基因,其中4个已报道的基因LcEXPA8、LcEXPA18、LcEXPA14、LcEXPA1可作为丝瓜果形控制的潜在候选基因。对另外4个基因进行RT-qPCR分析,LcEXPA15在花后4 d显著高表达,LcEXPA3、LcEXPA16和LcEXPA7在花后8 ~ 15 d显著高表达。花后2 ~ 15 d是普通丝瓜的果实膨大期,这时期的果实细胞数量增加、单细胞明显膨大、伸长。由此推测,4个Expansin可能在催化细胞生长,促进果实膨大过程中发挥重要作用。通过构建8个Expansin互作网络,提示部分Expansin可能与ERF、bHLH、TCP和GATA这4类转录因子家族存在互作。以上8个Expansin基因可作为普通丝瓜果实膨大相关候选基因进行深入研究。
陈敏氡, 王彬, 白昌辉, 裘波音, 刘建汀, 温庆放, 朱海生, 李永平. 普通丝瓜Expansin家族基因的鉴定及其在果实膨大中的表达分析[J]. 园艺学报, 2025, 52(6): 1488-1504.
CHEN Mindong, WANG Bin, BAI Changhui, QIU Boyin, LIU Jianting, WEN Qingfang, ZHU Haisheng, and LI Yongping. Identification of Expansin Family Gene and Its Expression Analysis During Fruit Enlargement in Sponge Gourd[J]. Acta Horticulturae Sinica, 2025, 52(6): 1488-1504.
基因Gene | 引物序列Primer sequence(5′-3′) |
---|---|
LcEXPA16 | F:AAACGGAAATAGTAGCGG;R:TCCAATCAGCAGGGAGTA |
LcEXPA3 | F:CCCAAGTGGTGTCTTCCTG;R:GCACGGTACTGAGCGATT |
LcEXPA7 | F:AGAAAGGTGGAGTGAGGTTCA;R:TATCGACACGGCATGGAC |
LcEXPA15 | F:CTCCAGTAGCCTCCCATTT;R:GCCATAACCTGCCTTGACT |
18sRNA | F:GCTTGGGTGCTCGACAAACT;R:TCCACAGAGCAATGTCAATGG |
表1 本研究中所用RT-qPCR引物
Table 1 RT-qPCR primers used in this study
基因Gene | 引物序列Primer sequence(5′-3′) |
---|---|
LcEXPA16 | F:AAACGGAAATAGTAGCGG;R:TCCAATCAGCAGGGAGTA |
LcEXPA3 | F:CCCAAGTGGTGTCTTCCTG;R:GCACGGTACTGAGCGATT |
LcEXPA7 | F:AGAAAGGTGGAGTGAGGTTCA;R:TATCGACACGGCATGGAC |
LcEXPA15 | F:CTCCAGTAGCCTCCCATTT;R:GCCATAACCTGCCTTGACT |
18sRNA | F:GCTTGGGTGCTCGACAAACT;R:TCCACAGAGCAATGTCAATGG |
基因名称 Gene name | 基因ID Gene ID | 染色体位置 Chromosome position | 氨基酸/aa Amino acid number | 分子量/kD Molecular weight | 理论等电点 Theory isoelectric point | |||
---|---|---|---|---|---|---|---|---|
LcEXPA1 | Maker00039481 | Scaffold10:44274633..44276318(-) | 242 | 59.74 | 5.12 | |||
LcEXPA2 | Maker00039350 | Scaffold10:42862024..42863052(-) | 271 | 67.93 | 5.07 | |||
LcEXPA3 | Maker00039137 | Scaffold10:45546872..45547695(+) | 247 | 61.82 | 5.08 | |||
LcEXPA4 | Maker00036366 | Scaffold5:48146177..48147973(+) | 242 | 59.97 | 5.14 | |||
LcEXPA5 | Maker00033676 | Scaffold13:37888029..37890899(-) | 258 | 63.83 | 5.10 | |||
LcEXPA6 | Maker00030282 | Scaffold6:14070765..14072443(+) | 261 | 64.67 | 5.11 | |||
LcEXPA7 | Maker00028836 | Scaffold7:11466255..11470101(-) | 252 | 64.36 | 5.05 | |||
LcEXPA8 | Maker00026031 | Scaffold7:2531229..2532764(-) | 266 | 66.01 | 5.10 | |||
LcEXPA9 | Maker00018301 | Scaffold3:15686323..15688378(-) | 264 | 65.19 | 5.10 | |||
LcEXPA10 | Maker00016100 | Scaffold6:42665910..42667187(+) | 279 | 69.54 | 5.08 | |||
LcEXPA11 | Maker00013380 | Scaffold1:12581253..12583334(-) | 289 | 71.29 | 5.07 | |||
LcEXPA12 | Maker00012399 | Scaffold1:13900544..13901668(+) | 260 | 65.89 | 5.05 | |||
LcEXPA13 | Maker00011031 | Scaffold4:27627243..27635585(-) | 510 | 129.04 | 4.94 | |||
LcEXPA14 | Maker00009740 | Scaffold7:8940229..8942250(-) | 264 | 66.11 | 5.06 | |||
LcEXPA15 | Maker00008644 | Scaffold10:33380501..33385747(-) | 338 | 84.60 | 5.05 | |||
LcEXPA16 | Maker00006224 | Scaffold4:5275140..5276227(-) | 252 | 61.61 | 5.16 | |||
LcEXPA17 | Maker00003094 | Scaffold12:37764073..37766325(-) | 287 | 71.50 | 5.08 | |||
LcEXPA18 | Maker00000768 | Scaffold8:44424275..44425647(+) | 259 | 64.59 | 5.08 | |||
LcEXPB1 | Maker00000264 | Scaffold8:41943956..41945654(-) | 353 | 87.82 | 5.03 | |||
LcEXPB2 | Maker00031725 | Scaffold11:4460008..:44601243(+) | 274 | 68.75 | 5.07 | |||
LcEXPB3 | Maker00008065 | Scaffold4:7569358..7572344(-) | 276 | 68.08 | 5.10 | |||
LcEXLA1 | Maker00037537 | Scaffold11:32691879..32693098(+) | 259 | 63.88 | 5.17 | |||
LcEXLA2 | Maker00037507 | Scaffold11:32677443..32678122(+) | 137 | 33.94 | 5.28 | |||
LcEXLA3 | Maker00022629 | Scaffold2:14547662..14548896(-) | 264 | 65.08 | 5.18 | |||
LcEXLA4 | Maker00022507 | Scaffold2:14624877..14626093(+) | 264 | 64.94 | 5.17 | |||
LcEXLA5 | Maker00022429 | Scaffold2:14529590..14530833(-) | 259 | 63.86 | 5.18 | |||
LcEXLA6 | Maker00022378 | Scaffold2:14666085..14667284(+) | 265 | 65.59 | 5.16 | |||
LcEXLA7 | Maker00020500 | Scaffold1:36285431..36288306(+) | 474 | 119.30 | 4.99 | |||
LcEXLA8 | Maker00015327 | Scaffold3:29504343..29505828(-) | 305 | 75.57 | 5.13 | |||
LcEXLA9 | Maker00015140 | Scaffold3:30071104..30076372(-) | 264 | 64.55 | 5.13 | |||
LcEXLA10 | Maker00015111 | Scaffold3:29507534..29508742(-) | 265 | 65.23 | 5.18 | |||
LcEXLA11 | Maker00015029 | Scaffold3:29059681..29062050(-) | 356 | 87.97 | 5.07 | |||
LcEXLA12 | Maker00015000 | Scaffold3:29055967..29057177(-) | 266 | 65.49 | 5.17 | |||
LcEXLA13 | Maker00014988 | Scaffold3:29376358..29377434(+) | 263 | 65.19 | 5.17 | |||
LcEXLA14 | Maker00014757 | Scaffold3:29145720..29146827(-) | 263 | 64.64 | 5.18 | |||
LcEXLA15 | Maker00014734 | Scaffold3:28994980..28996188(-) | 265 | 64.84 | 5.18 | |||
LcEXLA16 | Maker00014637 | Scaffold3:28901855..28903092(-) | 267 | 65.25 | 5.14 | |||
LcEXLA17 | Maker00014364 | Scaffold3:29435506..29437459(-) | 266 | 65.41 | 5.16 | |||
LcEXLA18 | Maker00014148 | Scaffold3:30094458..30096603(-) | 286 | 71.17 | 5.14 | |||
LcEXLA19 | Maker00013924 | Scaffold3:28963173..28964068(-) | 235 | 57.10 | 5.21 | |||
LcEXLA20 | Maker00013850 | Scaffold3:29069173..29075111(-) | 414 | 104.23 | 5.05 | |||
LcEXLA21 | Maker00013746 | Scaffold3:29194590..29195803(-) | 247 | 60.62 | 5.20 | |||
LcEXLA22 | Maker00013718 | Scaffold3:29455193..29456551(-) | 263 | 64.71 | 5.17 | |||
LcEXLA23 | Maker00013618 | Scaffold3:29098873..29100084(-) | 269 | 66.51 | 5.15 | |||
LcEXLA24 | Maker00005227 | Scaffold11:33830538..33832189(+) | 264 | 65.00 | 5.17 | |||
LcEXLA25 | Maker00005193 | Scaffold11:33797689..33799277(-) | 298 | 74.46 | 5.13 | |||
LcEXLA26 | Maker00005141 | Scaffold11:33820779..33822086(-) | 264 | 64.93 | 5.17 | |||
LcEXLA27 | Maker00003985 | Scaffold4:1360141..1361912(+) | 198 | 49.36 | 5.22 | |||
LcEXLB1 | Maker00038210 | Scaffold12:39908175..39910085(-) | 253 | 62.53 | 5.14 | |||
LcEXLB2 | Maker00038088 | Scaffold12:40370339..40373048(+) | 256 | 62.82 | 5.15 | |||
基因名称 Gene name | 基因ID Gene ID | 蛋白不稳定指数 Protein instability index | 脂溶指数 Lipid solubility index | 疏水性 Total average hydrophobicity | 亚细胞定位 Subcellular localization | |||
LcEXPA1 | Maker00039481 | 50.82 | 22.18 | 0.72 | 细胞外Extracellular | |||
LcEXPA2 | Maker00039350 | 51.01 | 22.26 | 0.79 | 细胞外Extracellular | |||
LcEXPA3 | Maker00039137 | 57.17 | 21.32 | 0.84 | 细胞外Extracellular | |||
LcEXPA4 | Maker00036366 | 41.14 | 21.35 | 0.62 | 内质网Endoplasmic | |||
LcEXPA5 | Maker00033676 | 48.80 | 24.42 | 0.80 | 细胞外Extracellular | |||
LcEXPA6 | Maker00030282 | 45.04 | 21.71 | 0.66 | 细胞外Extracellular | |||
LcEXPA7 | Maker00028836 | 61.26 | 19.97 | 0.92 | 叶绿体Chloroplast | |||
LcEXPA8 | Maker00026031 | 56.01 | 23.06 | 0.74 | 内质网Endoplasmic | |||
LcEXPA9 | Maker00018301 | 52.41 | 23.74 | 0.76 | 叶绿体Chloroplast | |||
LcEXPA10 | Maker00016100 | 53.80 | 24.25 | 0.77 | 叶绿体Chloroplast | |||
LcEXPA11 | Maker00013380 | 41.43 | 23.76 | 0.82 | 叶绿体Chloroplast | |||
LcEXPA12 | Maker00012399 | 56.19 | 18.85 | 0.85 | 细胞外Extracellular | |||
LcEXPA13 | Maker00011031 | 48.98 | 21.83 | 0.83 | 液泡Vacuole | |||
LcEXPA14 | Maker00009740 | 52.76 | 21.34 | 0.86 | 细胞外Extracellular | |||
LcEXPA15 | Maker00008644 | 48.99 | 21.79 | 0.71 | 叶绿体Chloroplast | |||
LcEXPA16 | Maker00006224 | 43.52 | 27.25 | 0.65 | 内质网Endoplasmic | |||
LcEXPA17 | Maker00003094 | 48.54 | 24.62 | 0.80 | 细胞质Cytoplasm | |||
LcEXPA18 | Maker00000768 | 50.04 | 21.24 | 0.81 | 细胞外Extracellular | |||
LcEXPB1 | Maker00000264 | 48.95 | 23.23 | 0.76 | 叶绿体Chloroplast | |||
LcEXPB2 | Maker00031725 | 50.10 | 20.07 | 0.74 | 细胞外Extracellular | |||
LcEXPB3 | Maker00008065 | 43.53 | 22.34 | 0.68 | 液泡Vacuole | |||
LcEXLA1 | Maker00037537 | 42.07 | 30.76 | 0.70 | 叶绿体Chloroplast | |||
LcEXLA2 | Maker00037507 | 42.46 | 27.01 | 0.61 | 叶绿体Chloroplast | |||
LcEXLA3 | Maker00022629 | 41.60 | 32.20 | 0.69 | 叶绿体Chloroplast | |||
LcEXLA4 | Maker00022507 | 40.72 | 32.45 | 0.72 | 细胞外Extracellular | |||
LcEXLA5 | Maker00022429 | 38.76 | 32.43 | 0.68 | 叶绿体Chloroplast | |||
LcEXLA6 | Maker00022378 | 36.96 | 32.20 | 0.72 | 叶绿体Chloroplast | |||
LcEXLA7 | Maker00020500 | 51.72 | 24.40 | 0.74 | 叶绿体Chloroplast | |||
LcEXLA8 | Maker00015327 | 41.21 | 30.27 | 0.71 | 叶绿体Chloroplast | |||
LcEXLA9 | Maker00015140 | 37.36 | 26.39 | 0.71 | 细胞外Extracellular | |||
LcEXLA10 | Maker00015111 | 38.05 | 29.94 | 0.64 | 细胞外Extracellular | |||
LcEXLA11 | Maker00015029 | 47.43 | 27.15 | 0.71 | 细胞质Cytoplasm | |||
LcEXLA12 | Maker00015000 | 43.60 | 30.08 | 0.66 | 细胞外Extracellular | |||
LcEXLA13 | Maker00014988 | 38.12 | 27.63 | 0.60 | 细胞外Extracellular | |||
LcEXLA14 | Maker00014757 | 39.28 | 29.66 | 0.61 | 叶绿体Chloroplast | |||
LcEXLA15 | Maker00014734 | 37.80 | 30.06 | 0.63 | 叶绿体Chloroplast | |||
LcEXLA16 | Maker00014637 | 39.87 | 25.97 | 0.66 | 细胞外Extracellular | |||
LcEXLA17 | Maker00014364 | 42.27 | 31.70 | 0.72 | 细胞外Extracellular | |||
LcEXLA18 | Maker00014148 | 39.96 | 29.49 | 0.70 | 细胞外Extracellular | |||
LcEXLA19 | Maker00013924 | 33.66 | 30.64 | 0.62 | 叶绿体Chloroplast | |||
LcEXLA20 | Maker00013850 | 41.44 | 26.17 | 0.67 | 内质网Endoplasmic | |||
LcEXLA21 | Maker00013746 | 37.90 | 30.90 | 0.62 | 叶绿体Chloroplast | |||
LcEXLA22 | Maker00013718 | 42.64 | 30.42 | 0.68 | 细胞外Extracellular | |||
LcEXLA23 | Maker00013618 | 42.52 | 30.61 | 0.70 | 叶绿体Chloroplast | |||
LcEXLA24 | Maker00005227 | 39.20 | 30.18 | 0.67 | 细胞外Extracellular | |||
LcEXLA25 | Maker00005193 | 47.09 | 31.10 | 0.72 | 叶绿体Chloroplast | |||
LcEXLA26 | Maker00005141 | 34.91 | 30.43 | 0.67 | 细胞外Extracellular | |||
LcEXLA27 | Maker00003985 | 43.48 | 29.12 | 0.64 | 液泡Vacuole | |||
LcEXLB1 | Maker00038210 | 41.61 | 26.48 | 0.68 | 细胞外Extracellular | |||
LcEXLB2 | Maker00038088 | 37.14 | 26.69 | 0.66 | 细胞外Extracellular |
表2 普通丝瓜Expansin家族基因及其理化性质
Table 2 Expansin family genes and their physicochemical properties of sponge gourd
基因名称 Gene name | 基因ID Gene ID | 染色体位置 Chromosome position | 氨基酸/aa Amino acid number | 分子量/kD Molecular weight | 理论等电点 Theory isoelectric point | |||
---|---|---|---|---|---|---|---|---|
LcEXPA1 | Maker00039481 | Scaffold10:44274633..44276318(-) | 242 | 59.74 | 5.12 | |||
LcEXPA2 | Maker00039350 | Scaffold10:42862024..42863052(-) | 271 | 67.93 | 5.07 | |||
LcEXPA3 | Maker00039137 | Scaffold10:45546872..45547695(+) | 247 | 61.82 | 5.08 | |||
LcEXPA4 | Maker00036366 | Scaffold5:48146177..48147973(+) | 242 | 59.97 | 5.14 | |||
LcEXPA5 | Maker00033676 | Scaffold13:37888029..37890899(-) | 258 | 63.83 | 5.10 | |||
LcEXPA6 | Maker00030282 | Scaffold6:14070765..14072443(+) | 261 | 64.67 | 5.11 | |||
LcEXPA7 | Maker00028836 | Scaffold7:11466255..11470101(-) | 252 | 64.36 | 5.05 | |||
LcEXPA8 | Maker00026031 | Scaffold7:2531229..2532764(-) | 266 | 66.01 | 5.10 | |||
LcEXPA9 | Maker00018301 | Scaffold3:15686323..15688378(-) | 264 | 65.19 | 5.10 | |||
LcEXPA10 | Maker00016100 | Scaffold6:42665910..42667187(+) | 279 | 69.54 | 5.08 | |||
LcEXPA11 | Maker00013380 | Scaffold1:12581253..12583334(-) | 289 | 71.29 | 5.07 | |||
LcEXPA12 | Maker00012399 | Scaffold1:13900544..13901668(+) | 260 | 65.89 | 5.05 | |||
LcEXPA13 | Maker00011031 | Scaffold4:27627243..27635585(-) | 510 | 129.04 | 4.94 | |||
LcEXPA14 | Maker00009740 | Scaffold7:8940229..8942250(-) | 264 | 66.11 | 5.06 | |||
LcEXPA15 | Maker00008644 | Scaffold10:33380501..33385747(-) | 338 | 84.60 | 5.05 | |||
LcEXPA16 | Maker00006224 | Scaffold4:5275140..5276227(-) | 252 | 61.61 | 5.16 | |||
LcEXPA17 | Maker00003094 | Scaffold12:37764073..37766325(-) | 287 | 71.50 | 5.08 | |||
LcEXPA18 | Maker00000768 | Scaffold8:44424275..44425647(+) | 259 | 64.59 | 5.08 | |||
LcEXPB1 | Maker00000264 | Scaffold8:41943956..41945654(-) | 353 | 87.82 | 5.03 | |||
LcEXPB2 | Maker00031725 | Scaffold11:4460008..:44601243(+) | 274 | 68.75 | 5.07 | |||
LcEXPB3 | Maker00008065 | Scaffold4:7569358..7572344(-) | 276 | 68.08 | 5.10 | |||
LcEXLA1 | Maker00037537 | Scaffold11:32691879..32693098(+) | 259 | 63.88 | 5.17 | |||
LcEXLA2 | Maker00037507 | Scaffold11:32677443..32678122(+) | 137 | 33.94 | 5.28 | |||
LcEXLA3 | Maker00022629 | Scaffold2:14547662..14548896(-) | 264 | 65.08 | 5.18 | |||
LcEXLA4 | Maker00022507 | Scaffold2:14624877..14626093(+) | 264 | 64.94 | 5.17 | |||
LcEXLA5 | Maker00022429 | Scaffold2:14529590..14530833(-) | 259 | 63.86 | 5.18 | |||
LcEXLA6 | Maker00022378 | Scaffold2:14666085..14667284(+) | 265 | 65.59 | 5.16 | |||
LcEXLA7 | Maker00020500 | Scaffold1:36285431..36288306(+) | 474 | 119.30 | 4.99 | |||
LcEXLA8 | Maker00015327 | Scaffold3:29504343..29505828(-) | 305 | 75.57 | 5.13 | |||
LcEXLA9 | Maker00015140 | Scaffold3:30071104..30076372(-) | 264 | 64.55 | 5.13 | |||
LcEXLA10 | Maker00015111 | Scaffold3:29507534..29508742(-) | 265 | 65.23 | 5.18 | |||
LcEXLA11 | Maker00015029 | Scaffold3:29059681..29062050(-) | 356 | 87.97 | 5.07 | |||
LcEXLA12 | Maker00015000 | Scaffold3:29055967..29057177(-) | 266 | 65.49 | 5.17 | |||
LcEXLA13 | Maker00014988 | Scaffold3:29376358..29377434(+) | 263 | 65.19 | 5.17 | |||
LcEXLA14 | Maker00014757 | Scaffold3:29145720..29146827(-) | 263 | 64.64 | 5.18 | |||
LcEXLA15 | Maker00014734 | Scaffold3:28994980..28996188(-) | 265 | 64.84 | 5.18 | |||
LcEXLA16 | Maker00014637 | Scaffold3:28901855..28903092(-) | 267 | 65.25 | 5.14 | |||
LcEXLA17 | Maker00014364 | Scaffold3:29435506..29437459(-) | 266 | 65.41 | 5.16 | |||
LcEXLA18 | Maker00014148 | Scaffold3:30094458..30096603(-) | 286 | 71.17 | 5.14 | |||
LcEXLA19 | Maker00013924 | Scaffold3:28963173..28964068(-) | 235 | 57.10 | 5.21 | |||
LcEXLA20 | Maker00013850 | Scaffold3:29069173..29075111(-) | 414 | 104.23 | 5.05 | |||
LcEXLA21 | Maker00013746 | Scaffold3:29194590..29195803(-) | 247 | 60.62 | 5.20 | |||
LcEXLA22 | Maker00013718 | Scaffold3:29455193..29456551(-) | 263 | 64.71 | 5.17 | |||
LcEXLA23 | Maker00013618 | Scaffold3:29098873..29100084(-) | 269 | 66.51 | 5.15 | |||
LcEXLA24 | Maker00005227 | Scaffold11:33830538..33832189(+) | 264 | 65.00 | 5.17 | |||
LcEXLA25 | Maker00005193 | Scaffold11:33797689..33799277(-) | 298 | 74.46 | 5.13 | |||
LcEXLA26 | Maker00005141 | Scaffold11:33820779..33822086(-) | 264 | 64.93 | 5.17 | |||
LcEXLA27 | Maker00003985 | Scaffold4:1360141..1361912(+) | 198 | 49.36 | 5.22 | |||
LcEXLB1 | Maker00038210 | Scaffold12:39908175..39910085(-) | 253 | 62.53 | 5.14 | |||
LcEXLB2 | Maker00038088 | Scaffold12:40370339..40373048(+) | 256 | 62.82 | 5.15 | |||
基因名称 Gene name | 基因ID Gene ID | 蛋白不稳定指数 Protein instability index | 脂溶指数 Lipid solubility index | 疏水性 Total average hydrophobicity | 亚细胞定位 Subcellular localization | |||
LcEXPA1 | Maker00039481 | 50.82 | 22.18 | 0.72 | 细胞外Extracellular | |||
LcEXPA2 | Maker00039350 | 51.01 | 22.26 | 0.79 | 细胞外Extracellular | |||
LcEXPA3 | Maker00039137 | 57.17 | 21.32 | 0.84 | 细胞外Extracellular | |||
LcEXPA4 | Maker00036366 | 41.14 | 21.35 | 0.62 | 内质网Endoplasmic | |||
LcEXPA5 | Maker00033676 | 48.80 | 24.42 | 0.80 | 细胞外Extracellular | |||
LcEXPA6 | Maker00030282 | 45.04 | 21.71 | 0.66 | 细胞外Extracellular | |||
LcEXPA7 | Maker00028836 | 61.26 | 19.97 | 0.92 | 叶绿体Chloroplast | |||
LcEXPA8 | Maker00026031 | 56.01 | 23.06 | 0.74 | 内质网Endoplasmic | |||
LcEXPA9 | Maker00018301 | 52.41 | 23.74 | 0.76 | 叶绿体Chloroplast | |||
LcEXPA10 | Maker00016100 | 53.80 | 24.25 | 0.77 | 叶绿体Chloroplast | |||
LcEXPA11 | Maker00013380 | 41.43 | 23.76 | 0.82 | 叶绿体Chloroplast | |||
LcEXPA12 | Maker00012399 | 56.19 | 18.85 | 0.85 | 细胞外Extracellular | |||
LcEXPA13 | Maker00011031 | 48.98 | 21.83 | 0.83 | 液泡Vacuole | |||
LcEXPA14 | Maker00009740 | 52.76 | 21.34 | 0.86 | 细胞外Extracellular | |||
LcEXPA15 | Maker00008644 | 48.99 | 21.79 | 0.71 | 叶绿体Chloroplast | |||
LcEXPA16 | Maker00006224 | 43.52 | 27.25 | 0.65 | 内质网Endoplasmic | |||
LcEXPA17 | Maker00003094 | 48.54 | 24.62 | 0.80 | 细胞质Cytoplasm | |||
LcEXPA18 | Maker00000768 | 50.04 | 21.24 | 0.81 | 细胞外Extracellular | |||
LcEXPB1 | Maker00000264 | 48.95 | 23.23 | 0.76 | 叶绿体Chloroplast | |||
LcEXPB2 | Maker00031725 | 50.10 | 20.07 | 0.74 | 细胞外Extracellular | |||
LcEXPB3 | Maker00008065 | 43.53 | 22.34 | 0.68 | 液泡Vacuole | |||
LcEXLA1 | Maker00037537 | 42.07 | 30.76 | 0.70 | 叶绿体Chloroplast | |||
LcEXLA2 | Maker00037507 | 42.46 | 27.01 | 0.61 | 叶绿体Chloroplast | |||
LcEXLA3 | Maker00022629 | 41.60 | 32.20 | 0.69 | 叶绿体Chloroplast | |||
LcEXLA4 | Maker00022507 | 40.72 | 32.45 | 0.72 | 细胞外Extracellular | |||
LcEXLA5 | Maker00022429 | 38.76 | 32.43 | 0.68 | 叶绿体Chloroplast | |||
LcEXLA6 | Maker00022378 | 36.96 | 32.20 | 0.72 | 叶绿体Chloroplast | |||
LcEXLA7 | Maker00020500 | 51.72 | 24.40 | 0.74 | 叶绿体Chloroplast | |||
LcEXLA8 | Maker00015327 | 41.21 | 30.27 | 0.71 | 叶绿体Chloroplast | |||
LcEXLA9 | Maker00015140 | 37.36 | 26.39 | 0.71 | 细胞外Extracellular | |||
LcEXLA10 | Maker00015111 | 38.05 | 29.94 | 0.64 | 细胞外Extracellular | |||
LcEXLA11 | Maker00015029 | 47.43 | 27.15 | 0.71 | 细胞质Cytoplasm | |||
LcEXLA12 | Maker00015000 | 43.60 | 30.08 | 0.66 | 细胞外Extracellular | |||
LcEXLA13 | Maker00014988 | 38.12 | 27.63 | 0.60 | 细胞外Extracellular | |||
LcEXLA14 | Maker00014757 | 39.28 | 29.66 | 0.61 | 叶绿体Chloroplast | |||
LcEXLA15 | Maker00014734 | 37.80 | 30.06 | 0.63 | 叶绿体Chloroplast | |||
LcEXLA16 | Maker00014637 | 39.87 | 25.97 | 0.66 | 细胞外Extracellular | |||
LcEXLA17 | Maker00014364 | 42.27 | 31.70 | 0.72 | 细胞外Extracellular | |||
LcEXLA18 | Maker00014148 | 39.96 | 29.49 | 0.70 | 细胞外Extracellular | |||
LcEXLA19 | Maker00013924 | 33.66 | 30.64 | 0.62 | 叶绿体Chloroplast | |||
LcEXLA20 | Maker00013850 | 41.44 | 26.17 | 0.67 | 内质网Endoplasmic | |||
LcEXLA21 | Maker00013746 | 37.90 | 30.90 | 0.62 | 叶绿体Chloroplast | |||
LcEXLA22 | Maker00013718 | 42.64 | 30.42 | 0.68 | 细胞外Extracellular | |||
LcEXLA23 | Maker00013618 | 42.52 | 30.61 | 0.70 | 叶绿体Chloroplast | |||
LcEXLA24 | Maker00005227 | 39.20 | 30.18 | 0.67 | 细胞外Extracellular | |||
LcEXLA25 | Maker00005193 | 47.09 | 31.10 | 0.72 | 叶绿体Chloroplast | |||
LcEXLA26 | Maker00005141 | 34.91 | 30.43 | 0.67 | 细胞外Extracellular | |||
LcEXLA27 | Maker00003985 | 43.48 | 29.12 | 0.64 | 液泡Vacuole | |||
LcEXLB1 | Maker00038210 | 41.61 | 26.48 | 0.68 | 细胞外Extracellular | |||
LcEXLB2 | Maker00038088 | 37.14 | 26.69 | 0.66 | 细胞外Extracellular |
物种Species | EXPA亚家族 EXPA subfamily | EXPB亚家族 EXPB subfamily | EXLA亚家族 EXLA subfamily | EXLB亚家族 EXLB subfamily |
---|---|---|---|---|
普通丝瓜Sponge gourd | 18 | 3 | 27 | 2 |
拟南芥Arabidopsis | 25 | 6 | 3 | 1 |
葡萄Grape | 20 | 4 | 1 | 4 |
陆地棉Upland cotton | 46 | 8 | 6 | 12 |
苹果Apple | 34 | 1 | 2 | 4 |
甜瓜Melon | 21 | 3 | 8 | 3 |
黄瓜Cucumber | 21 | 3 | 9 | 2 |
表3 不同作物Expansin亚家族基因数目
Table 3 Gene number of Expansin subfamilies in different crops
物种Species | EXPA亚家族 EXPA subfamily | EXPB亚家族 EXPB subfamily | EXLA亚家族 EXLA subfamily | EXLB亚家族 EXLB subfamily |
---|---|---|---|---|
普通丝瓜Sponge gourd | 18 | 3 | 27 | 2 |
拟南芥Arabidopsis | 25 | 6 | 3 | 1 |
葡萄Grape | 20 | 4 | 1 | 4 |
陆地棉Upland cotton | 46 | 8 | 6 | 12 |
苹果Apple | 34 | 1 | 2 | 4 |
甜瓜Melon | 21 | 3 | 8 | 3 |
黄瓜Cucumber | 21 | 3 | 9 | 2 |
复制事件 Replication event | 基因对 Gene pair | 同义替换率/Ks Synonymous substitution rate | 非同义替换率/Ka Non synonymous substitution rate | Ka/Ks | 进化时间(×106年) Evolution time |
---|---|---|---|---|---|
串联复制 Tandem replication | LcEXLA1/LcEXLA2 | 0.0130 | 0.0425 | 0.3052 | 3.27 |
LcEXLA24/LcEXLA26 | 0.0634 | 0.1533 | 0.4136 | 11.79 | |
LcEXLA8/LcEXLA22 | 0.1165 | 0.3072 | 0.3791 | 23.63 | |
LcEXLA3/LcEXLA5 | 0.0202 | 0.2132 | 0.0948 | 16.40 | |
片段复制 Fragment replication | LcEXLA25/LcEXLA12 | 0.2793 | 0.8348 | 0.3345 | 64.22 |
LcEXLA12/LcEXLA6 | 0.2716 | 0.6760 | 0.4017 | 52.00 | |
LcEXLA8/LcEXLA6 | 0.3015 | 1.2057 | 0.2501 | 92.74 | |
LcEXLA14/LcEXLA22 | 0.2783 | 0.8367 | 0.3326 | 64.36 | |
LcEXLA7/LcEXLA14 | 0.0964 | 0.7387 | 0.1305 | 56.82 | |
LcEXLA7/LcEXLA22 | 0.2854 | 1.0210 | 0.2795 | 78.53 |
表4 普通丝瓜Expansin基因的复制事件分析
Table 4 Analysis of replication events of Expansin gene in sponge gourd
复制事件 Replication event | 基因对 Gene pair | 同义替换率/Ks Synonymous substitution rate | 非同义替换率/Ka Non synonymous substitution rate | Ka/Ks | 进化时间(×106年) Evolution time |
---|---|---|---|---|---|
串联复制 Tandem replication | LcEXLA1/LcEXLA2 | 0.0130 | 0.0425 | 0.3052 | 3.27 |
LcEXLA24/LcEXLA26 | 0.0634 | 0.1533 | 0.4136 | 11.79 | |
LcEXLA8/LcEXLA22 | 0.1165 | 0.3072 | 0.3791 | 23.63 | |
LcEXLA3/LcEXLA5 | 0.0202 | 0.2132 | 0.0948 | 16.40 | |
片段复制 Fragment replication | LcEXLA25/LcEXLA12 | 0.2793 | 0.8348 | 0.3345 | 64.22 |
LcEXLA12/LcEXLA6 | 0.2716 | 0.6760 | 0.4017 | 52.00 | |
LcEXLA8/LcEXLA6 | 0.3015 | 1.2057 | 0.2501 | 92.74 | |
LcEXLA14/LcEXLA22 | 0.2783 | 0.8367 | 0.3326 | 64.36 | |
LcEXLA7/LcEXLA14 | 0.0964 | 0.7387 | 0.1305 | 56.82 | |
LcEXLA7/LcEXLA22 | 0.2854 | 1.0210 | 0.2795 | 78.53 |
图5 普通丝瓜果实膨大期细胞形态差异 2、4、8、10和15 DAA:花后2、4、8、10和15 d
Fig. 5 The cell morphology of fruit enlargement stage in sponge gourd 2,4,8,10 and 15 DAA:2,4,8,10,15 days after anthesis
图6 4个Expansin的RT-qRCR和RNA-seq结果 不同字母表示差异显著(P < 0.05)
Fig. 6 RT-qRCR and RNA-seq results of 4 Expansin genes Different letters indicate significant differences at 0.05 level
图7 普通丝瓜中8个Expansin基因的互作网络 图中连线颜色代表Expansin基因与关联基因的相关性类型。红色代表正相关,蓝色代表负相关;线条粗细代表相关性数值大小。关联的转录因子用红色标注
Fig. 7 Interaction network of 8 Expansin genes in sponge gourd The color of the line in the figure represents the type of correlation between Expansin genes and associated genes. Red represents positive correlation and blue represents negative correlation;The thickness of the line represents the magnitude of the correlation value. The associated transcription factors are marked in red
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