丽江猪SCARB2基因序列特征及组织表达分析

doi:10.16431/j.cnki.1671-7236.2026.01.031

Abstract

Abstract:

Objective The aim of this study was to amplify the sequence of scavenger receptor class B member 2 （SCARB2） gene in Lijiang pigs and conduct bioinformatics analysis，and detect its expression in various tissues of Lijiang pigs， providing a theoretical basis for exploring the function of this gene in the future. Method Adipose tissues from 6-month-old Lijiang pigs were collected， the mRNA sequence of SCARB2 gene from wild boar （Sus scrofa） in GenBank （accession No.： NM_001244155.1） was be used as a reference sequence to design primers， the CDS region sequence of SCARB2 gene was amplified and sequenced， and bioinformatics analysis software was used to analyze the sequence characteristics and codon preferences of SCARB2 gene， the similarity of SCARB2 gene sequence between multiple species and Lijiang pigs， as well as between domestic and foreign pig breeds and Lijiang pigs， was analyzed，and the phylogenetic tree was constructed. The physicochemical properties and protein structure of SCARB2 protein were predicted. Real-time quantitative PCR was used to detect the expression of SCARB2 gene in the back fat， heart， liver， lung， kidney， and other tissues of 2， 4， and 6-month-old Lijiang pigs and 6-month-old Duroc pigs. Result The total length of the CDS region sequence of SCARB2 gene in Lijiang pigs was 1 437 bp， encoding 478 amino acids. The homology between Lijiang pigs and Capra hircus， Ovis aries， Bos taurus， Equus caballus， Rattus norvegicus， Mus musculus， Homo sapiens and Gallus gallus was 91.3%， 91.2%， 91.0%， 89.8%， 82.6%， 82.5%， 76.0%， and 66.0%， respectively. Among 6 local pig breeds， except for Bama Miniature pigs， the similarity between Lijiang pigs and local pigs in China was 99.4%， and the similarity with foreign pigs ranged from 99.1% to 99.3%. Phylogenetic tree analysis showed that Lijiang pigs were grouped with Sus scrofa， Bos taurus， Capra hircus and Ovis aries， while Gallus gallus form a separate branche. SCARB2 protein was a hydrophilic protein with 2 transmembrane helices， 1 signal peptide cleavage site， 10 N-glycosylation sites， and 39 phosphorylation sites. The secondary and tertiary structures were mainly characterized by random coil. The expression of SCARB2 gene in back fat and liver of 6-month-old Lijiang pigs was extremely significantly higher than that in other tissues （P<0.01）. With the age increasing， the expression of SCARB2 gene in abdominal fat， back fat and shoulder fat of Lijiang pigs showed a significant increase， reaching significant or extremely significant levels between 2 and 6 months of age （P<0.05 or P<0.01）. The expression in back fat of 6-month-old Lijiang pigs was extremely significantly higher than that of Duroc pigs （P<0.01）. Conclusion This study successfully amplified the SCARB2 gene sequence of Lijiang pigs and analyzed its molecular characteristics. SCARB2 gene was expressed in multiple tissues such as subcutaneous fat， liver， and lung， and its expression significantly increased with age in subcutaneous fat tissue. Therefore， SCARB2 could be used as a candidate gene for studying fat deposition traits in Lijiang pigs， and the results could further provide reference for studying the molecular mechanism of pig fat deposition.

Key words: Lijiang pigs; SCARB2 gene; sequence analysis; tissue expression

CLC Number:

S828

LIANG Bingkun, WANG Zhen, LIU Ziyu, YAN Dawei, DONG Xinxing, ZHU Jiawei. Sequence Characteristics and Tissue Expression of SCARB2 Gene in Lijiang Pigs[J]. China Animal Husbandry & Veterinary Medicine, 2026, 53(1): 343-358.

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猪种 Pig breeds	月龄 Months	体重 Body weight/kg
丽江猪 Lijiang pigs	2	14.16±0.29
	4	35.00±2.00
	6	60.50±2.65
杜洛克猪 Duroc pigs	6	131.00±2.65

物种 Species	Ensembl基因ID Ensembl gene ID	物种 Species	GenBank登录号 GenBank accession No.
八眉猪 Bamei pigs	ENSSSCT00050095439.1	欧亚野猪 Sus scrofa	NM_001244155.1
巴马小型猪 Bama Miniature pigs	ENSSSCT00085059484.1	人 Homo sapiens	NM_001204255.2
藏猪 Tibetan pigs	ENSSSCT00015058019.1	大鼠 Rattus norvegicus	NM_054001.2
金华猪 Jinhua pigs	ENSSSCT00060020456.1	小鼠 Mus musculus	NM_007644.4
梅山猪 Meishan pigs	ENSSSCT00040096134.1	牛 Bos taurus	NM_001102153.1
五指山猪 Wuzhishan pigs	ENSSSCT00005062544.1	山羊 Capra hircus	XM_005681792.3
奥赛博小型猪 Ossabaw Miniature pigs	ENSSSCT00130033168.1	绵羊 Ovis aries	XM_015096290.3
巴克夏猪 Berkshire pigs	ENSSSCT00065107117.1	原鸡 Gallus gallus	XM_420593.8
大白猪 Large White pigs	ENSSSCT00025026478.1	马 Equus caballus	XM_023637936.1
杜洛克猪 Duroc pigs	ENSSSCT00090022610.1	兔 Oryctolagus cuniculus	XM_002717104.4
汉普夏猪 Hampshire pigs	ENSSSCT00035105054.1	犬 Canis lupus familiaris	XM_038443859.1
皮特兰猪 Pietran pigs	ENSSSCT00055016304.1
长白猪 Landrace pigs	ENSSSCT00045022417.1

在线软件 Online software	网址 Website	用途 Application
OFR Finder	https：//www.ncbi.nlm.nih.gov/orffinder/	开放阅读框（ORF）分析
BLAST	https：//blast.ncbi.nlm.nih.gov/Blast.cgi	相似性比对
ProtParam	https：//web.expasy.org/protparam/	理化性质分析
ProtScale	https：//web.expasy.org/protscale/	亲/疏水性预测
SignalP 5.0	https：//services.healthtech.dtu.dk/service.php？SignalP-5.0	信号肽预测
TMHMM 2.0	https：//services.healthtech.dtu.dk/service.php？TMHMM-2.0	跨膜结构预测
NetNGlyc 1.0	https：//services.healthtech.dtu.dk/services/NetNGlyc-1.0/	糖基化位点预测
NetPhos 3.1	https：//services.healthtech.dtu.dk/service.php？NetPhos-3.1	磷酸化位点预测
PSORT Ⅱ	https：//www.genscript.com/psort.html	亚细胞定位预测
STRING 12.0	https：//string-db.org/	互作网络预测
SOPMA	https：//npsa-pbil.ibcp.fr/cgi-bin/npsa_automat.pl？page=npsa_sopma.html	二级结构预测
SWISS-MODEL	https：//swissmodel.expasy.org/	三级结构预测

基因 Genes	引物序列 Primer sequences （5′→3′）	产物长度 Product length/bp
SCARB2	F：AAGTCGCCTGAAGTCTGTGG	145
	R：GTCTGCAGTTCCCTCATCCA	145
GAPDH	F：GACATCAAGAAGGTGGTGAAGCA	177
	R：GTCGTACCAGGAAATGAGCTTGA	177

物种 Species	密码子适应指数 CAI	有效密码子数 ENc	密码子偏好性指数 CBI	最佳密码子使用频率 FOP	GC	GC3s
丽江猪 Lijiang pigs	0.216	53.30	0.043	0.436	0.482	0.577
野猪 Sus scrofa	0.220	53.19	0.047	0.438	0.479	0.568
人 Homo sapiens	0.204	54.71	-0.017	0.407	0.466	0.516
大鼠 Rattus norvegicus	0.209	53.79	-0.003	0.414	0.471	0.555
小鼠 Mus musculus	0.211	54.06	0.025	0.427	0.474	0.570
牛 Bos taurus	0.140	52.83	-0.053	0.373	0.469	0.448
山羊 Capra hircus	0.214	52.77	0.027	0.432	0.461	0.527
绵羊 Ovis aries	0.218	52.55	0.043	0.441	0.460	0.527
原鸡 Gallus gallus	0.219	54.46	-0.037	0.386	0.450	0.438
马 Equus caballus	0.196	52.67	0.009	0.418	0.467	0.543
兔 Oryctolagus cuniculus	0.221	49.86	0.081	0.459	0.517	0.660
犬 Canis lupus familiaris	0.200	52.55	-0.018	0.406	0.455	0.516

Sequence Characteristics and Tissue Expression of SCARB2 Gene in Lijiang Pigs

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氨基酸 Amino acids	数量 Number/个	比例 Proportion/%	氨基酸 Amino acids	数量 Number/个	比例 Proportion/%
丙氨酸 Ala（A）	25	5.23	亮氨酸 Leu（L）	49	10.25
精氨酸 Arg（R）	22	4.60	赖氨酸 Lys（K）	23	4.81
天冬酰胺 Asn（N）	28	5.86	蛋氨酸 Met（M）	8	1.67
天冬氨酸 Asp（D）	29	6.07	苯丙氨酸 Phe（F）	29	6.07
半胱氨酸 Cys（C）	8	1.67	脯氨酸 Pro（P）	23	4.81
谷氨酰胺 Gln（Q）	9	1.88	丝氨酸 Ser（S）	25	5.23
谷氨酸 Glu（E）	28	5.86	苏氨酸 Thr（T）	34	7.11
甘氨酸 Gly（G）	31	6.49	色氨酸 Trp（W）	7	1.46
组氨酸 His（H）	6	1.26	酪氨酸 Tyr（Y）	20	4.18
异亮氨酸 Ile（I）	36	7.53	缬氨酸 Val（V）	38	7.95

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