Gene Variant of Barrier to Autointegration Factor 2 (Banf2w) Is Concordant with Female Determination in Cichlids
Abstract
:1. Introduction
2. Results
2.1. Assembly of Sequence-Read Contigs for Marker Design and Analysis of Association in the Oa SD Region
2.2. The Gene Models of Banf2 Locus in Oa Hybrid Stock
2.3. The Gene Models of Banf2 Locus in Purebred Oa
2.4. Banf2w Is Female-Specific in Cichlidae Species with WZ/ZZ SD System on LG3
2.5. Competitive Expression of Banf2w and Other Banf2 Genes in Oa Females
2.6. The Paics Gene Candidates for SD
3. Discussion
4. Materials and Methods
4.1. Fish
4.2. DNA Extraction, PCR Amplification, Agarose Separation and Sanger Sequencing
4.3. Marker Development and Search for Coding Polymorphism in O. aureus
4.4. Copy Number Estimation with Sanger and Construction Genetic Models
4.5. Sequence Alignments
4.6. Expression Analysis
4.7. Statistics
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Data Availability Statement
Conflicts of Interest
References
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Marker | Primers | Assay | Accession No. | |
---|---|---|---|---|
UNH168 | F | FAM-TAAGAAGGTTAGAAAGAAAGTG | PAGE 1 | G12320 |
R | TATATAATAATTTCCTAAACGGC | |||
Paics_long | F | GCGGGAGACTAGCTGCAATA | AGE 2 | NC_031967 |
R | TTGCAGCACATGGACAGTAG | |||
Paics_short | F | TCCTCACGTGGAAATCAATG | AGE | OU234059 |
R | CCACCAGCTGGAAAATCTGT | |||
Banf2_del | F | CTACTCTGGGGAGGGAGCTG | AGE | OU023198 |
R | TGACTGTTTGCTCCACTGCT | |||
Banf2w | F | CTCTGGCCTCCTCGGTCA | HRM 3 | OU019478 |
R | TGACTGTTTGCTCCACTGCT | |||
M1_like | F | GGCTAATATTTTGTTGTGTGTAGGG | AGE | NC_031967 XM_025906134 |
R | AGGAACAACTGCTCTTCAGGA | |||
Banf2_EX3 | F | CCAATCTTCTTGTTCCTGACC | Sanger sequencing | OU019478 |
R | GAGGTGCCTCTCAGGTAAAGG |
Intron 1 | Exon | Intron | ||
---|---|---|---|---|
No. | Size (bp) | Size (bp) | ||
GTTAAAGTTCTA | 1 | 119 | AAACAGgttcgtttgc | 1002 |
ttcttctcagGATGTC | 2 | 127 | AGCAAGgtgcacaaaa | 668 |
gtgttttcagGCCTCT | 3 | 231 | CTGTGAGGCCCCGCCCCCTTTACCT GAGAGGCACCTCTCAGCTGATTAT GTGCTGAGCATGAATAAA ACATAAATAAAGTTTGTGTGCCGGAG |
Marker | Position (Kbp) | Genotypes | Females: Males | p-Value |
---|---|---|---|---|
UNH168 | 64,515 | N/N 1 | 5:12 | 6 × 10−12 |
N/W | 22:2 | |||
N/Z | 8:29 | |||
Z/W | 13:0 | |||
Z/Z | 0:5 | |||
Paics_long (Paics-1) | 73,159 | F/F 2 | 27:14 | 3.9 × 10−3 |
F/S | 21:29 | |||
S/S | 0:5 | |||
Banf2_del | 73,177 | F/S 2 | 48:1 | 1.5 × 10−26 |
S/S | 0:47 | |||
Banf2_w | 73,178 | W/Z | 48:1 | 1.5 × 10−26 |
Z/Z | 0:47 | |||
Paics_short (Paics-2) | 73,217 | P 3 | 48:1 | 1.5 × 10−26 |
A | 0:47 | |||
M1_like | 73,394 | F/F 2 | 4:5 | 6.8 × 10−3 |
F/S | 25:10 | |||
S/S | 19:33 |
ZZ | WZ | WW | ||
---|---|---|---|---|
Observed Distribution | ||||
0 | 48 | 0 | ||
Inheritance Models 1 | Expected Distribution | 2p | ||
Autosomal locus 3 | 12 | 24 | 12 | 3.8 × 10−11 |
Lethal WW homozygote 4 | 16 | 32 | 0 | 6.4 × 10−5 |
Female determining W 5 | 0 | 48 | 0 | 1 |
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Curzon, A.Y.; Shirak, A.; Benet-Perlberg, A.; Naor, A.; Low-Tanne, S.I.; Sharkawi, H.; Ron, M.; Seroussi, E. Gene Variant of Barrier to Autointegration Factor 2 (Banf2w) Is Concordant with Female Determination in Cichlids. Int. J. Mol. Sci. 2021, 22, 7073. https://doi.org/10.3390/ijms22137073
Curzon AY, Shirak A, Benet-Perlberg A, Naor A, Low-Tanne SI, Sharkawi H, Ron M, Seroussi E. Gene Variant of Barrier to Autointegration Factor 2 (Banf2w) Is Concordant with Female Determination in Cichlids. International Journal of Molecular Sciences. 2021; 22(13):7073. https://doi.org/10.3390/ijms22137073
Chicago/Turabian StyleCurzon, Arie Yehuda, Andrey Shirak, Ayana Benet-Perlberg, Alon Naor, Shai Israel Low-Tanne, Haled Sharkawi, Micha Ron, and Eyal Seroussi. 2021. "Gene Variant of Barrier to Autointegration Factor 2 (Banf2w) Is Concordant with Female Determination in Cichlids" International Journal of Molecular Sciences 22, no. 13: 7073. https://doi.org/10.3390/ijms22137073