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| 1 | Correction of β-thalassemia mutant by base editor in human embryos显示文摘 | Puping Liang Chenhui Ding Hongwei Sun Xiaowei Xie Yanwen Xu Xiya Zhang Ying Sun Yuanyan Xiong Wenbin Ma Yongxiang Liu Yali Wang Jianpei Fang Dan Liu Zhou Songyang Canquan Zhou Junjiu Huang | 2017 | Protein & Cell2017，8，11： | 34 |
| 2 | Effective gene editing by high-fidelity base editor 2 in mouse zygotes显示文摘通过相应再结合的指向的点 mutagenesis 广泛地在基因研究被使用了并且为在病人修理引起疾病的变化保持可观的诺言。然而,象 mosaicism 那样的问题和低 mutagenesis 效率继续提出挑战到如此的途径的临床的申请。最近,一个基础编辑器() 在 cytidine (C) 脱氨基酶上造的系统和 CRISPR/Cas9 技术在植物,酵母,和人的房间为指向的点 mutagenesis 作为一个其他的方法被开发。然而,基础编辑器高效地在 deamination 窗口中把 C 变换成 thymidine (T) 是否指向了在鼠标胚胎的基础编辑,仍然保持不清楚是可行的。在这份报告,我们产生了基础编辑的一个修改高保真版本 2 (HF2-BE2 ) ,并且调查了它在老鼠胚胎编辑功效的底。我们发现 HF2-BE2 能高效地把 C 变换成 T,与直到在老鼠胚胎的 100% biallelic 变化效率。不同于 BE3, HF2-BE2 能在目标和非目标海滨上把 C 变换成 T,扩展基础编辑器的编辑范围。令人惊讶地,我们发现 HF2-BE2 能也使脱去氨基对 gRNA 有约束力的区域近似的 C。一起拿,我们的工作表明由基础编辑,和下划线在鼠标产生点变化的可行性小心地优化编辑系统以便消除近似地点的 deamination 的底的需要。 | Puping Liang Hongwei Sun Ying Sun Xiya Zhang Xiaowei Xie Jinran Zhang zhen Zhang Yuxi Chen Chenhui Ding Yuanyan Xiong Wenbin Ma Dan Liu Junjiu Huang Zhou Songyang | 2017 | Protein & Cell2017，8，8： | 17 |
| 3 | Human telomeric proteins occupy selective interstitial sites显示文摘人的 telomeres 被在六核心 telomeric 蛋白质 RAP1, TRF1, TRF2, TIN2, TPP1,和 POT1 附近装配的蛋白质建筑群绑并且保护。telomeres 上的这些蛋白质的功能广泛地被学习了。最近,增加证据在 telomeres 外面为这些蛋白质建议了可能的角色。然而,不在经典中(extra-telomeric ) 人的 telomeric 蛋白质遗体的功能糟糕理解。到这个目的,我们系统地沿着人的染色体调查了 telomeric 蛋白质的有约束力的地点,由执行为 RAP1 和 TRF2 的整个染色体的染色质 immunoprecipitation (薄片) 。(ChIP-seq ) 薄片定序表明 RAP1 和 TRF2 能在空隙的地点的一个小数字上被发现,包括对基因近似的区域。一些这些有约束力的地点包含短 telomere 重复,建议蛋白质能直接绑在空隙的地点的那 telomeric。有趣地,仅仅可得到的空隙的 telomere 的小部分包含重复的区域被 RAP1 和 TRF2 占据。宫外地表示的 TRF2 能占据另外的空隙的 telomere 重复地点,建议蛋白质集中可以支配到空隙的地点的 telomeric 蛋白质的选择指向。由 RNA 干扰减少 RAP1 和 TRF2 表示导致了指向 RAP1 、指向 TRF2 的基因的改变的抄写。我们的结果显示人的 telomeric 蛋白质能占据一小部分空隙的地点并且调整基因抄写。 | Dong Yang Yuanyan Xiong Hyeung Kim Quanyuan He Yumei Li Rui Chen Zhou Songyang | 2011 | Cell Research2011，21，7： | 7 |
| 4 | Effective and precise adenine base editing n mouse zygotes显示文摘 | Puping Liang Hongwei Sun Xiya Zhang Xiaowei Xie Jinran Zhang Yaofu Bai Xueling Ouyang Shengyao Zhi Yuanyan Xiong Wenbin Ma Dan Liu Junjiu Huang Zhou Songyang | 2018 | Protein & Cell2018，9，9： | 4 |
| 5 | Profiling kidney microRNAs from juvenile grass carp(Ctenopharyngodon idella) after 56 days of oral exposure to decabromodiphenyl ethane显示文摘Grass carp(Ctenopharyngodon idella) is one of the most important species in China.Decabromodiphenyl ethane(DBDPE) is a brominated flame retardant that has been used widely in industry, and has been observed to accumulate in the tissues of fish from South China. Evidence has shown that DBDPE is toxic to aquatic animals, but the molecular response has been unclear. MicroRNAs(miRNAs) are small noncoding and negative regulatory RNAs that are 20–24 nucleotides in length, which are involved in a wide range of biological processes. We took advantage of deep-sequencing techniques to accurately and comprehensively profile the kidney mi RNA expression of grass carp after 8 weeks of oral exposure to DBDPE. After mapping sequencing data to the genome and Expressed Sequence Tags(ESTs) of grass carp, we identified 493 miRNAs in the sequenced grass carp samples, which included 51 new miRNAs. The results indicated that 5 miRNAs were significantly down-regulated and 36 miRNAs were significantly up-regulated(FDR < 0.001,1.5-fold change) after DBDPE exposure. Real-time quantitative PCR(RT-q PCR) was performed on 4 miRNAs from the two samples, and the sequencing and RT-q PCR data were consistent. This study provides the first comprehensive identification of grass carp miRNAs, and the first expression analysis of grass carp miRNAs following DBDPE exposure.The results indicated that miRNAs have potential for use as biomarkers. | Lian Gan Yuanyan Xiong Fang Dong Yunjiang Yu Lijuan Zhang Shunmei E. Liliu Zhou Xiaoxia Li Guocheng Hu | 2016 | Journal of Environmental Sciences2016，28，6： | 4 |
| 6 | Bend family proteins mark chromatin boundaries and synergistically promote early germ cell differentiation显示文摘Understanding the regulatory networks for germ cell fate specification is necessary to developing strategies for improving the efficiency of germ cell production in vitro.In this study,we developed a coupled screening strategy that took advantage of an arrayed bi-molecular fluorescence complementation(BiFC)platform for protein-protein interaction screens and epiblast-like cell(EpiLC)-induction assays using reporter mouse embryonic stem cells(mESCs).Investigation of candidate interaction partners of core human pluripotent factors OCT4,NANOG,KLF4 and SOX2 in EpiLC differentiation assays identified novel primordial germ cell(PGC)-inducing factors including BEN-domain(BEND/Bend)family members.Through RNA-seq,ChIP-seq,and ATAC-seq analyses,we showed that Bend5 worked together with Bend4 and helped mark chromatin boundaries to promote EpiLC induction in vitro.Our findings suggest that BEND/Bend proteins represent a new family of transcriptional modulators and chromatin boundary factors that participate in gene expression regulation during early germline development. | Guang Shi Yaofu Bai Xiya Zhang Junfeng Su Junjie Pang Quanyuan He Pengguihang Zeng Junjun Ding Yuanyan Xiong Jingran Zhang Jingwen Wang Dan Liu Wenbin Ma Junjiu Huang Zhou Songyang | 2022 | Protein & Cell2022，13，10： | 1 |
| 7 | The Variability of Amino Acid Sequences in Hepatitis B Virus显示文摘Hepatitis B virus(HBV) is an important human pathogen belonging to the Hepadnaviridae family, Orthohepadnavirus genus. Over 240 million people are infected with HBV worldwide. The reverse transcription during its genome replication leads to low fidelity DNA synthesis, which is the source of variability in the viral proteins. To investigate the variability quantitatively, we retrieved amino acid sequences of 5,167 records of all available HBV genotypes(A–J) from the Genbank database. The amino acid sequences encoded by the open reading frames(ORF) S/C/P/X in the HBV genome were extracted and subjected to alignment. We analyzed the variability of the lengths and the sequences of proteins as well as the frequencies of amino acids. It comprehensively characterized the variability and conservation of HBV proteins at the level of amino acids. Especially for the structural proteins, hepatitis B surface antigens(HBsAg), there are potential sites critical for virus assembly and immune recognition. Interestingly, the preS1 domains in HBsAg were variable at some positions of amino acid residues, which provides a potential mechanism of immune-escape for HBV, while the preS2 and S domains were conserved in the lengths of protein sequences. In the S domain, the cysteine residues and the secondary structures of the alpha-helix and beta-sheet were likely critical for the stable folding of all HBsAg components. Also, the preC domain and C-terminal domain of the core protein are highly conserved. However, the polymerases(HBpol) and the HBx were highly variable at the amino acid level. Our research provides a basis for understanding the conserved and important domains of HBV viral proteins, which could be potential targets for anti-virus therapy. | Jianhao Cao Shuhong Luo Yuanyan Xiong | 2019 | Virologica Sinica2019，34，1： | 1 |
| 8 | Comparative Genomics Reveals Evolutionary Drivers of Sessile Life and Left-right Shell Asymmetry in Bivalves显示文摘Bivalves are species-rich mollusks with prominent protective roles in coastal ecosystems.Across these ancient lineages,colony-founding larvae anchor themselves either by byssus production or by cemented attachment.The latter mode of sessile life is strongly molded by left-right shell asymmetry during larval development of Ostreoida oysters such as Crassostrea hongkongensis.Here,we sequenced the genome of C.hongkongensis in high resolution and compared it to reference bivalve genomes to unveil genomic determinants driving cemented attachment and shell asymmetry.Importantly,loss of the homeobox gene Antennapedia(Antp)and broad expansion of lineagespecific extracellular gene families are implicated in a shift from byssal to cemented attachment in bivalves.Comparative transcriptomic analysis shows a conspicuous divergence between leftright asymmetrical C.hongkongensis and symmetrical Pinctada fucata in their expression profiles.Especially,a couple of orthologous transcription factor genes and lineage-specific shell-related gene families including that encoding tyrosinases are elevated,and may cooperatively govern asymmetrical shell formation in Ostreoida oysters. | Yang Zhang Fan Mao Shu Xiao Haiyan Yu Zhiming Xiang Fei Xu Jun Li Lili Wang Yuanyan Xiong Mengqiu Chen Yongbo Bao Yuewen Deng Quan Huo Lvping Zhang Wenguang Liu Xuming Li Haitao Ma Yuehuan Zhang Xiyu Mu Min Liu Hongkun Zheng Nai-Kei Wong Ziniu Yu | 2022 | Genomics, Proteomics & Bioinformatics2022，20，6： | 0 |
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