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研究生: 吳哲豪
Wu, Che-Hao
論文名稱: 以膜鑲嵌E 型免疫球蛋白上CεmX 區域作為治療標的之實用性探究
Studies to Investigate the Feasibility of the CεmX Domain of Membrane-bound IgE as A Therapeutic Target
指導教授: 張子文
Chang, Tse-Wen
徐邦達
Hsu, Ban-Da
口試委員: 羅傅倫
Roffler, Steve R.
張子文
徐邦達
莊樹諄
楊立威
學位類別: 博士
Doctor
系所名稱: 生命科學暨醫學院 - 生物資訊與結構生物研究所
Institute of Bioinformatics and Structural Biology
論文出版年: 2011
畢業學年度: 100
語文別: 英文
論文頁數: 144
中文關鍵詞: 膜鑲嵌E 型免疫球蛋白靈長類基因發生學單株抗體抗CεmX人源化
外文關鍵詞: CεmX, Primates, Pylogenetics, Monoclonal antibody, anti-CεmX, Humanization
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  • 論文內容可分成兩部分:一為探討CεmX蛋白區域之基因發生。旨在希望藉此瞭解CεmX在調節E型免疫球蛋白的角色,替抗CεmX抗體找出適合的靈長動物試驗模型。CεmX長52個胺基酸,僅表現於B淋巴細胞表面,位在膜鑲嵌E型免疫球蛋白重鏈恆常第四區域與膜錨著片段之間。膜鑲嵌免疫球蛋白對B淋巴細胞的生存與分化不可或缺。經由訊息核糖核酸的替代性剪接,依膜鑲嵌E型免疫球蛋白有或無CεmX分為長或短型,長型在試管及人體內的表現皆百倍以上顯著優於短型。CεmX擁有獨特基因和胜肽序列,已知資料庫中均無法找到類似匹配。根據小鼠和先前零星靈長動物E型免疫球蛋白重鏈基因定序結果,我們推論CεmX可能僅見於靈長動物而不存在於其他哺乳動物。小鼠及人類其他各型免疫球蛋白重鏈基因裡沒有相對應的片段,比較兩物種間各型免疫球蛋白重鏈基因膜錨著片段則發現E型免疫球蛋白的序列相似度最低,僅62.7%,明顯低於M/G/A型的92.2/88.5/77.2%。文獻顯示小鼠和大鼠在與人類CεmX相對位置的插入子基因片段序列具和相鄰表現子(重鏈第四區域與膜錨著片段)相近的類似度。綜合以上線索,我們以靈長類演化時程為經,E型免疫球蛋白重鏈基因序列為緯,展開基因發生學研究追溯CεmX和膜錨著片段的演化蹤跡。分析共26種靈長目動物及12種、7個非靈長目哺乳綱動物後,得出以下結論:1)現存三大系群趺猴的E型免疫球蛋白基因序列中,大出意外地無法標定出有意義的膜錨著片段;2)早期演化的簡鼻靈長動物,例如指猴、狐猴、懶猴的膜鑲嵌E型免疫球蛋白基因不具有CεmX,其基因型態與齧齒目等非靈長哺乳動物中所見相同;3)晚期出現的平鼻靈長動物中,新世界猴的基因序列足使人相信牠們體內只產生長膜鑲嵌E型免疫球蛋白,而不似舊世界猴、猿和人類可產生長或短型兩種。
    在論文第二部份呈現將人鼠嵌合型抗CεmX單株抗體4B12人源化的步驟和結果。CεmX序列和表現細胞的獨特性使它成為以免疫學方法治療過敏疾病的優良標的,經抗體效能測試,嵌合型4B12單株抗體能成功引致表現人類長膜鑲嵌E型免疫球蛋白可結晶區的Ramos轉染B淋巴細胞株的細胞凋亡和抗體細胞毒殺作用,且使體外培養的人類週邊血B淋巴細胞E型免疫球蛋白產量下降。以(抗原)配合決定區移植法進行單株抗體人源化的技巧關鍵在選擇與小鼠源抗體基因變異部最契合的人源抗體基因變異部模版,先依序重組小鼠源抗體變異部內之配合決定區和人源框架區基因,再循理性地設計並製備候選抗體群,包含一系列人源框架區位址的胺基酸改回小鼠源框架區胺基酸的返突變。繼免疫酵素分析法相競各株候選抗體之抗原親和力於嵌合型4B12,結果顯示小鼠源抗體輕鏈變異部配合決定區移植入人源模版基因不影響抗體活性;相對之重鏈變異部移植則在第71號位址,由人源纈胺酸返突變為小鼠源精胺酸所獲得的抗體親和力最佳。Biacore生物感應器測定人源化4B12抗體親和力常數達0.98±0.21 nM略高於嵌合型的1.45±0.17 nM。


    There are two parts in my dissertation. In the first part, we conducted a phylogenetic study of CεmX segment in primates to elucidate its evolutionary origin. It is hoped that this study will help to understand the function of CεmX in the regulation of IgE production. The study may also help to identify appropriate primate species as animal models to investigate anti-CεmX antibodies as potential therapeutics for IgE-mediated allergic diseases. Membrane-bound IgE (mIgE) on B lymphocytes is essential for IgE production. Earlier studies showed that the ε chain of mIgE (mε) on human B cells has a “long” isoform, with an
    extra “CεmX” domain of 52 amino acid residues between the CH4 domain and the membrane anchor segment, as compared to the conventional “short” isoform. CεmX is found only in humans and a few primate species that we had examined (unpublished data), not in other species, and its sequence shares no significant homology with sequences in contemporary DNA and protein databases. Comparing membrane exons of each Ig isotype between mouse and human, the mε is the least conservative. Interestingly, 3’ region of gene segments between the CH4 and M1, correspond to the 156bp segment encoding CεmX, have high degrees of sequence
    conservation in mouse and human, which is with comparable degrees to neighboring coding regions. We analyzed the ε Ig gene; in particular, its membrane exon regions encoding the membrane anchor peptide segment and CεmX domain, of 26 species of the order Primates and 12 species of seven non-Primate orders. Our analyses reveal the unexpected finding that the genes of three extant tarsier species do not contain the membrane exons for mIgE. Another striking finding is that early evolved Strepsirhini primates such as lemurs and lorises do not have gene segments for the long isoform, whereas New World monkeys such as marmosets and squirrel monkeys allow the transcription of only the long isoform. In Old World monkeys and apes, including humans, the ε gene allows the transcription of both isoforms.
    In the second part of the thesis, I carried out the humanization of an anti-CεmX antibody, 4B12, which has been developed by a research team of which I am a member. After a series of characterizations, 4B12 has been determined as a suitable candidate for clinical development. Academia Sinica has also licensed the technology on 4B12 to a biotech firm based in Taiwan.
    6 CεmX provides an antigenic site for targeting IgE expressing B cells. Functional studies have revealed that chimeric anti-CεmX monoclonal antibody (mAb), 4B12, can potentially control IgE production. I humanized it by first grafting its six complementarity-determining regions (CDRs) into human frameworks (FWs). Those residues in the FWs of VH and VL of the parental murine 4B12 that are essential for Fv dimer interaction and CDR conformation were identified by analyzing the binding affinity of a number of designed antibody variants, using competitive ELISA and SPR (surface plasmon resonance) analysis. A humanized 4B12
    retaining the affinity of its parent was obtained by adopting all FWs of the selected human Vκ template and all FWs of the selected VH with only one residue change at position 71. The Val of the human VH was replaced by Arg at the corresponding position of the murine VH. The KD of the chimeric and humanized 4B12 are 0.98±0.21 nM and 1.45±0.17 nM, respectively.

    誌謝辭 1 中文摘要 3 英文摘要 5 Chapter 1 Phylogenetic Study of Membrane-Bound IgE in Primates 7 1.1 Rationale and Significance 7 1.2 Materials and Methods 9 PCR and DNA sequencing of Primate Ig heavy ε chain (IGHE) genes 9 Analyzing IGHE loci by nucleotide BLAST 9 Isolating ε gene-harboring clones in tarsier λ phage genomic libraries by plaque hybridization screening 9 1.3 Results 11 Strepsirhini primates and non-primate mammals do not have a gene segment for the long mε isoform 11 New World monkeys, Old World monkeys and apes possess me.p 12 New World monkeys may not have the short mε isoform 12 Old World monkeys express predominantly long mε isoform 12 Tarsiers do not seem to have membrane exons of the ε Ig gene 13 1.4 Discussion 15 Chapter 2 Humanization of anti-CεmX monoclonal antibody 4B12 18 2.1 Introduction 18 2.2 Materials and Methods 21 Expression of chimeric and humanized 4B12 mAbs 21 Conjugation of chimeric 4B12 to Horseradish Peroxidase (HRP) 21 Evaluation of humanized 4B12 mAb variants by competitive ELISA 21 Computer molecular modeling of murine 4B12 Fv fragment 22 Surface plasmon resonance assay 22 2.3 Results 23 2.4 Discussion 25 Tables 26 Table I GenBank entries and sequences of IGHE gene specific primer 26 Table II Sources of the DNA samples analyzed in this study and the primers employed to amplify and clone the gene segments of interest.. 29 Table III Alignment programs and parameter sets employed in preparing Figure 3 32 Table IV Species and □ gene segments analyzed in this dissertation 33 Table V Occurrence of mε isoforms in species analyzed in this study 36 Table VI Binding of 11-67 of chimeric and humanized 4B12 variants 38 Table VII Effect of the VH V071R substitution by homology modeling 39 Table VIII The kinetic constants of the binding of chimeric and humanized 4B12 to 11-67 40 Figures 41 Figure 1 Schematic representations of the structural domains and segments of the short and long isoforms of mε.. 41 Figure 2 The phylogeny and molecular time scales of the evolution of primates studied in this dissertation. 42 Figure 3 Alignment of exons and homologous segments of the □ gene among the species studied in this paper. 43 Figure 4 (a) Amino acid sequence alignments of CεmX and an N-terminal segment of M1 of representative anthropoid species. The shaded segment represents the junction of CεmX and M1. (b) Amino acid and nucleotide sequence alignments at the junction of CεmX/me.p and M1/me.1, as shaded in Figure 4a.. 44 Figure 5 (a) Restriction enzyme maps of the □ genomic segment of the three tarsier species studied in this paper and the loss of canonical splicing donor site at CH4. (b) Degrees of homology of DNA sequence among the three tarsier species. 45 Figure 6 Location and sequence of CεmX domain in mIgE. 46 Figure 7 Amino acid sequences of the VL and VH chains, its respective humanizing templates, and grafting of human FWs of murine 4B12. 47 Figure 8 The side view (a) and top view (b) of modeling diagrams of murine 4B12 Fv fragment. 48 Figure 9 Biacore sensograms of chimeric (a) and humanized (b) 4B12 binding to 11-67 49 Figure 10 Structural views of the humanized 4B12 Fab.. 51 Appendix 52 Table A1 Unpublished diversities in the IgE gene of primates in this study 52 Figure A1 Comparison of the long and short forms of Cε1 genes in patas monkeys (E. patas) where the insertion of repetitive twelve basepairs “GCCTCCGATGCC” which encodes the polypeptide “ASDA”.. 53 Figure A2 A shorter me.p segment found in the me.p of three-striped night monkeys. 54 Figure A3 Sequence diversity observed in the me.1 and me.2 of the red-bellied titi. 55 Figure A4 The intron between me.1 and me.2 of lar gibbons (H. lar) is a GC-AG intron. 56 Figure A5 A cytidine base deletion leads to frameshift mutation in siamangs’ me.2. 57 References 58 Publications 64

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