Acta Veterinaria et Zootechnica Sinica ›› 2024, Vol. 55 ›› Issue (10): 4455-4465.doi: 10.11843/j.issn.0366-6964.2024.10.018
• Animal Biotechnology and Reproduction • Previous Articles Next Articles
Yinliang ZHANG(), Ran ZHANG, Wenjun WANG, Dehe WANG, Lanhui LI, Rongyan ZHOU*(
)
Received:
2024-03-25
Online:
2024-10-23
Published:
2024-11-04
Contact:
Rongyan ZHOU
E-mail:874197127@.qq.com;rongyanzhou@126.com
CLC Number:
Yinliang ZHANG, Ran ZHANG, Wenjun WANG, Dehe WANG, Lanhui LI, Rongyan ZHOU. Mining of Key Candidate Genes Involved in Bone Metabolism Differences at Pre- and Post-laying Stage Based on Transcriptome Data in Laying Hens[J]. Acta Veterinaria et Zootechnica Sinica, 2024, 55(10): 4455-4465.
Table 1
Primers information"
基因 Gene | 登录号 Accession number | 引物序列(5′→3′) Primer sequence | 扩增长度/bp Amplification length |
TF | NP_990635.2 | F: CAACCTCAGGGACCTCACAC | 167 |
R: TGGGCTTCAGCTTGTATGGG | |||
CNRIP1 | NP_001264459.1 | F: CAGGTCAACATGCAGTTTAACGA | 105 |
R: AAAGCTGTTTCCCCATTGGC | |||
COL1A2 | NP_001073182.2 | F: CCAGAATGGAGCAGCGGTTT | 163 |
R: TGTCCTTGGGGTTCTTGCTG | |||
COL1A1 | NP_001383551.1 | F: CGACGGCTTCCAGTTTGAGT | 119 |
R: TGCAGTGGTAGGTGACGTTC | |||
SPARC | NP_989741.2 | F: TTCTTTGAGGCCTGCGACTT | 94 |
R: CCTTGTCTATGTCCTGCTCCT | |||
DCN | NP_001025918.2 | F: TGAGCTTCACCTTGATGGCA | 92 |
R: TGAAGCTGAGACCCAATTTAGC | |||
LBR | NP_001383068.1 | F: GGTGTGGGTTCCATTTGTCTACA | 80 |
R: CTGCAACCGGCCAAGAAA |
Table 2
RNA-Seq data quality evaluation and alignment of clean reads with the reference genome"
样品 Sample | 有效数据/条 Clean reads | GC含量/% GC content | Q20/% | Q30/% | 比对率/% Mapped reads rate |
15-2 | 55 522 890 | 49.39 | 97.38 | 93.80 | 85.56 |
15-23 | 148 259 264 | 50.26 | 97.47 | 94.11 | 85.85 |
15-32 | 85 701 896 | 50.04 | 97.50 | 94.03 | 76.52 |
15-33 | 47 345 806 | 50.14 | 97.62 | 94.51 | 83.68 |
15-42 | 66 035 028 | 49.16 | 97.38 | 93.85 | 82.87 |
15-43 | 48 688 256 | 50.22 | 97.66 | 94.50 | 80.74 |
22-2 | 97 043 162 | 49.20 | 97.53 | 93.82 | 83.13 |
22-32 | 108 833 720 | 48.42 | 96.84 | 92.18 | 90.24 |
22-38 | 43 688 004 | 49.92 | 97.49 | 94.06 | 80.56 |
22-44 | 86 418 652 | 49.83 | 97.53 | 94.06 | 82.12 |
22-75 | 186 154 554 | 49.63 | 97.48 | 94.00 | 90.55 |
22-94 | 40 082 240 | 49.62 | 97.21 | 93.41 | 81.45 |
Table 3
Information of key candidate genes in laying hens aged 15 and 22 weeks"
基因 Gene | P值 P value | log2(FC) | 通路 Pathway | 功能 Function | 趋势 Trend |
PDGFA | 0.000 331 | -1.902 04 | MAPK信号通路、 | 胶原结合 | 22周龄下调 |
PDGFC | 0.000 197 | -1.357 02 | PI3K-Akt信号通路 | 细胞外泌体 | 22周龄下调 |
PDGFB | 0.002 592 | 1.344 908 | 胶原结合 | 22周龄上调 | |
FGF10 | 0.002 682 | 1.659 565 | 肝素结合、细胞外基质 | 22周龄上调 | |
FGFR3 | 0.005 87 | -1.563 08 | 内质网 | 22周龄下调 | |
VEGFD | 0.001 986 | 1.889 158 | - | 22周龄上调 | |
PDGFD | 0.000 006 | -1.595 8 | 细胞外泌体 | 22周龄下调 | |
CSF1 | 0.001 241 | 1.456 194 | - | 22周龄上调 | |
ANGPT2 | 0.000 316 | -1.391 21 | - | 22周龄下调 | |
SOS1 | 0.004 797 | 0.776 605 | - | 22周龄上调 | |
FGFR1 | 0.000 003 | -1.980 24 | 肝素结合 | 22周龄下调 | |
NR4A1 | 0.003 716 | 2.293 577 | - | 22周龄上调 | |
THBS1 | 0.000 004 | -2.284 11 | TGF-β信号通路、PI3K-Akt信号通路 | 细胞外泌体、肝素结合、钙离子结合、细胞外基质 | 22周龄下调 |
SPON1 | 0.005 25 | -1.412 02 | 细胞外基质 | 22周龄下调 | |
FDFT1 | 0.000 005 | 1.312 108 | 类固醇生物合成、倍半萜及 | 内质网 | 22周龄上调 |
SQLE | 0.000 010 | 3.008 19 | 三萜生物合成 | - | 22周龄上调 |
TGFB3 | 0.001 093 | -1.011 22 | TGF-β信号通路、 | - | 22周龄下调 |
TGFBR2 | 0.005 073 | 1.120 741 | MAPK信号通路 | - | 22周龄上调 |
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