Evidence for Shaping of Light Chain Repertoire by Structural Selection
The naïve immunoglobulin (IG) repertoire in the blood differs from the direct output of the rearrangement process. These differences stem from selection that affects the germline gene usage and the junctional nucleotides. A major complication obscuring the details of the selection mechanism in the h...
Uložené v:
| Vydané v: | Frontiers in immunology Ročník 9; s. 1307 |
|---|---|
| Hlavní autori: | , , , , , |
| Médium: | Journal Article |
| Jazyk: | English |
| Vydavateľské údaje: |
Switzerland
Frontiers
22.06.2018
Frontiers Media S.A |
| Predmet: | |
| ISSN: | 1664-3224, 1664-3224 |
| On-line prístup: | Získať plný text |
| Tagy: |
Pridať tag
Žiadne tagy, Buďte prvý, kto otaguje tento záznam!
|
| Abstract | The naïve immunoglobulin (IG) repertoire in the blood differs from the direct output of the rearrangement process. These differences stem from selection that affects the germline gene usage and the junctional nucleotides. A major complication obscuring the details of the selection mechanism in the heavy chain is the failure to properly identify the D germline and determine the nucleotide addition and deletion in the junction region. The selection affecting junctional diversity can, however, be studied in the light chain that has no D gene. We use probabilistic and deterministic models to infer and disentangle generation and selection of the light chain, using large samples of light chains sequenced from healthy donors and transgenic mice. We have previously used similar models for the beta chain of T-cell receptors and the heavy chain of IGs. Selection is observed mainly in the CDR3. The CDR3 length and mass distributions are narrower after selection than before, indicating stabilizing selection for mid-range values. Within the CDR3, proline and cysteine undergo negative selection, while glycine undergoes positive selection. The results presented here suggest structural selection maintaining the size of the CDR3 within a limited range, and preventing turns in the CDR3 region. |
|---|---|
| AbstractList | The naïve immunoglobulin (IG) repertoire in the blood differs from the direct output of the rearrangement process. These differences stem from selection that affects the ger-mline gene usage and the junctional nucleotides. A major complication obscuring the details of the selection mechanism in the heavy chain is the failure to properly identify the D germline and determine the nucleotide addition and deletion in the junction region. The selection affecting junctional diversity can, however, be studied in the light chain that has no D gene. We use probabilistic and deterministic models to infer and disentangle gene ration and selection of the light chain, using large samples of light chains sequenced from healthy donors and transgenic mice. We have previously used similar models for the beta chain of T-cell receptors and the heavy chain of IGs. Selection is observed mainly in the CDR3. The CDR3 length and mass distributions are narrower after selection than before, indicating stabilizing selection for mid-range values. Within the CDR3, proline and cysteine undergo negative selection, while glycine undergoes positive selection. The results presented here suggest structural selection maintaining the size of the CDR3 within a limited range, and preventing turns in the CDR3 region. The naïve immunoglobulin (IG) repertoire in the blood differs from the direct output of the rearrangement process. These differences stem from selection that affects the germline gene usage and the junctional nucleotides. A major complication obscuring the details of the selection mechanism in the heavy chain is the failure to properly identify the D germline and determine the nucleotide addition and deletion in the junction region. The selection affecting junctional diversity can, however, be studied in the light chain that has no D gene. We use probabilistic and deterministic models to infer and disentangle generation and selection of the light chain, using large samples of light chains sequenced from healthy donors and transgenic mice. We have previously used similar models for the beta chain of T-cell receptors and the heavy chain of IGs. Selection is observed mainly in the CDR3. The CDR3 length and mass distributions are narrower after selection than before, indicating stabilizing selection for mid-range values. Within the CDR3, proline and cysteine undergo negative selection, while glycine undergoes positive selection. The results presented here suggest structural selection maintaining the size of the CDR3 within a limited range, and preventing turns in the CDR3 region. The naïve immunoglobulin (IG) repertoire in the blood differs from the direct output of the rearrangement process. These differences stem from selection that affects the germline gene usage and the junctional nucleotides. A major complication obscuring the details of the selection mechanism in the heavy chain is the failure to properly identify the D germline and determine the nucleotide addition and deletion in the junction region. The selection affecting junctional diversity can, however, be studied in the light chain that has no D gene. We use probabilistic and deterministic models to infer and disentangle generation and selection of the light chain, using large samples of light chains sequenced from healthy donors and transgenic mice. We have previously used similar models for the beta chain of T-cell receptors and the heavy chain of IGs. Selection is observed mainly in the CDR3. The CDR3 length and mass distributions are narrower after selection than before, indicating stabilizing selection for mid-range values. Within the CDR3, proline and cysteine undergo negative selection, while glycine undergoes positive selection. The results presented here suggest structural selection maintaining the size of the CDR3 within a limited range, and preventing turns in the CDR3 region.The naïve immunoglobulin (IG) repertoire in the blood differs from the direct output of the rearrangement process. These differences stem from selection that affects the germline gene usage and the junctional nucleotides. A major complication obscuring the details of the selection mechanism in the heavy chain is the failure to properly identify the D germline and determine the nucleotide addition and deletion in the junction region. The selection affecting junctional diversity can, however, be studied in the light chain that has no D gene. We use probabilistic and deterministic models to infer and disentangle generation and selection of the light chain, using large samples of light chains sequenced from healthy donors and transgenic mice. We have previously used similar models for the beta chain of T-cell receptors and the heavy chain of IGs. Selection is observed mainly in the CDR3. The CDR3 length and mass distributions are narrower after selection than before, indicating stabilizing selection for mid-range values. Within the CDR3, proline and cysteine undergo negative selection, while glycine undergoes positive selection. The results presented here suggest structural selection maintaining the size of the CDR3 within a limited range, and preventing turns in the CDR3 region. |
| Author | Benichou, Jennifer I. C. Louzoun, Yoram Walczak, Aleksandra M. Mora, Thierry Toledano, Adar Elhanati, Yuval |
| AuthorAffiliation | 2 Joseph Henry Laboratories, Princeton University , Princeton, NJ , United States 4 Laboratoire de physique statistique, UMR8550, CNRS, UPMC and Ecole normale supérieure , Paris , France 3 Laboratoire de Physique Théorique, UMR8549, CNRS and Ecole Normale Supérieure , Paris , France 1 Department of Mathematics, Gonda Brain Research Center, Bar Ilan University , Ramat Gan , Israel |
| AuthorAffiliation_xml | – name: 4 Laboratoire de physique statistique, UMR8550, CNRS, UPMC and Ecole normale supérieure , Paris , France – name: 3 Laboratoire de Physique Théorique, UMR8549, CNRS and Ecole Normale Supérieure , Paris , France – name: 2 Joseph Henry Laboratories, Princeton University , Princeton, NJ , United States – name: 1 Department of Mathematics, Gonda Brain Research Center, Bar Ilan University , Ramat Gan , Israel |
| Author_xml | – sequence: 1 givenname: Adar surname: Toledano fullname: Toledano, Adar – sequence: 2 givenname: Yuval surname: Elhanati fullname: Elhanati, Yuval – sequence: 3 givenname: Jennifer I. C. surname: Benichou fullname: Benichou, Jennifer I. C. – sequence: 4 givenname: Aleksandra M. surname: Walczak fullname: Walczak, Aleksandra M. – sequence: 5 givenname: Thierry surname: Mora fullname: Mora, Thierry – sequence: 6 givenname: Yoram surname: Louzoun fullname: Louzoun, Yoram |
| BackLink | https://www.ncbi.nlm.nih.gov/pubmed/29988361$$D View this record in MEDLINE/PubMed https://hal.sorbonne-universite.fr/hal-01833908$$DView record in HAL |
| BookMark | eNp1kktrGzEUhUVJadI0-67KLNuFHb1GljaFYJImYAjU7VroceVRmBm5mhlD_n1lOylJoNpIXJ3z6Yp7PqKTPvWA0GeC54xJdRli101ziomcY8Lw4h06I0LwGaOUn7w4n6KLYXjAZXHFGKs_oFOqlJRMkDN0c72LHnoHVUi5WjdmG_tNlUK1iptmrJaNiX31E7aQxxQzVPaxWo95cuOUTVutoQU3xtR_Qu-DaQe4eNrP0e-b61_L29nq_sfd8mo1c1yJcWYsgQBWek6wlbX3YALjXGJsQ6hBKuHFwkmKBXPeBluDZxaMkYRiVlvHztHdkeuTedDbHDuTH3UyUR8KKW-0yWN0LWiLcSgs8JJyzh22jioWnC0tWGB8UVjfj6ztZDvwDvqx_OkV9PVNHxu9STstMGVK0AL4dgQ0b2y3Vyu9r5XRMKaw3JGi_fr0WE5_JhhG3cXBQduaHtI06PLlhVQ1oaJIv7zs6x_5eWhFII4Cl9MwZAjaxdHsx1DajK0mWO8Dog8B0fuA6ENAihG_MT6z_2v5C1H2v5s |
| CitedBy_id | crossref_primary_10_1371_journal_pcbi_1009225 crossref_primary_10_1371_journal_pcbi_1006874 crossref_primary_10_3389_fimmu_2023_1166116 crossref_primary_10_1016_j_physrep_2020_01_001 |
| Cites_doi | 10.1084/jem.173.2.395 10.1073/pnas.0909775106 10.3389/fimmu.2013.00274 10.1111/j.1365-2567.2011.03527.x 10.4049/jimmunol.1201929 10.1073/pnas.050552997 10.1038/gene.2012.20 10.1016/0022-2836(91)90721-H 10.1111/j.1749-6632.2010.05877.x 10.1098/rstb.2014.0243 10.4049/jimmunol.1301384 10.1007/s00251-011-0559-z 10.1084/jem.177.4.1009 10.1088/1478-3975/aa7366 10.1038/gene.2014.56 10.1093/nar/gkv1198 10.1126/scitranslmed.3000540 10.1002/eji.1830240409 10.1038/nri1896 10.1093/nar/gkt382 10.1073/pnas.1409572111 10.1002/eji.200636569 10.1098/rstb.2014.0242 10.3389/fimmu.2016.00546 10.4049/jimmunol.1000445 10.1016/S1044-5323(02)00041-6 10.1084/jem.20031712 10.1038/nature12496 10.1038/gene.2013.10 10.1182/blood-2008-02-078071 10.4049/jimmunol.155.1.190 10.1159/000019054 10.1016/j.coi.2010.04.009 10.1038/nature02917 |
| ContentType | Journal Article |
| Copyright | Attribution Copyright © 2018 Toledano, Elhanati, Benichou, Walczak, Mora and Louzoun. 2018 Toledano, Elhanati, Benichou, Walczak, Mora and Louzoun |
| Copyright_xml | – notice: Attribution – notice: Copyright © 2018 Toledano, Elhanati, Benichou, Walczak, Mora and Louzoun. 2018 Toledano, Elhanati, Benichou, Walczak, Mora and Louzoun |
| DBID | AAYXX CITATION NPM 7X8 1XC VOOES 5PM DOA |
| DOI | 10.3389/fimmu.2018.01307 |
| DatabaseName | CrossRef PubMed MEDLINE - Academic Hyper Article en Ligne (HAL) Hyper Article en Ligne (HAL) (Open Access) PubMed Central (Full Participant titles) DOAJ Directory of Open Access Journals |
| DatabaseTitle | CrossRef PubMed MEDLINE - Academic |
| DatabaseTitleList | PubMed MEDLINE - Academic |
| Database_xml | – sequence: 1 dbid: DOA name: DOAJ Directory of Open Access Journals url: https://www.doaj.org/ sourceTypes: Open Website – sequence: 2 dbid: NPM name: PubMed url: http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?db=PubMed sourceTypes: Index Database – sequence: 3 dbid: 7X8 name: MEDLINE - Academic url: https://search.proquest.com/medline sourceTypes: Aggregation Database |
| DeliveryMethod | fulltext_linktorsrc |
| Discipline | Biology Mathematics Physics |
| EISSN | 1664-3224 |
| ExternalDocumentID | oai_doaj_org_article_b00f7c8ed82444c0bc293fcbb1ebe347 PMC6023962 oai:HAL:hal-01833908v1 29988361 10_3389_fimmu_2018_01307 |
| Genre | Journal Article |
| GrantInformation_xml | – fundername: Israel Science Foundation grantid: 98315 – fundername: H2020 European Research Council grantid: 306312 |
| GroupedDBID | 53G 5VS 9T4 AAFWJ AAKDD AAYXX ACGFO ACGFS ADBBV ADRAZ AENEX AFPKN ALMA_UNASSIGNED_HOLDINGS AOIJS BAWUL BCNDV CITATION DIK EBS EMOBN GROUPED_DOAJ GX1 HYE KQ8 M48 M~E OK1 PGMZT RNS RPM ACXDI IAO IEA IHR IHW IPNFZ NPM RIG 7X8 1XC VOOES 5PM |
| ID | FETCH-LOGICAL-c496t-ab1efeb8d410b85ddeaf344800bff5e896d67c82063cdbfb5ed3beaa812035bc3 |
| IEDL.DBID | DOA |
| ISICitedReferencesCount | 5 |
| ISICitedReferencesURI | http://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=Summon&SrcAuth=ProQuest&DestLinkType=CitingArticles&DestApp=WOS_CPL&KeyUT=000436132700001&url=https%3A%2F%2Fcvtisr.summon.serialssolutions.com%2F%23%21%2Fsearch%3Fho%3Df%26include.ft.matches%3Dt%26l%3Dnull%26q%3D |
| ISSN | 1664-3224 |
| IngestDate | Fri Oct 03 12:51:38 EDT 2025 Thu Aug 21 14:36:32 EDT 2025 Tue Oct 14 20:40:34 EDT 2025 Wed Oct 01 17:28:21 EDT 2025 Wed Feb 19 02:42:17 EST 2025 Sat Nov 29 02:50:32 EST 2025 Tue Nov 18 22:43:48 EST 2025 |
| IsDoiOpenAccess | true |
| IsOpenAccess | true |
| IsPeerReviewed | true |
| IsScholarly | true |
| Keywords | light chain selection B cell receptor deep sequencing rearrangement |
| Language | English |
| License | Attribution: http://creativecommons.org/licenses/by This is an open-access article distributed under the terms of the Creative Commons Attribution License (CC BY). The use, distribution or reproduction in other forums is permitted, provided the original author(s) and the copyright owner are credited and that the original publication in this journal is cited, in accordance with accepted academic practice. No use, distribution or reproduction is permitted which does not comply with these terms. |
| LinkModel | DirectLink |
| MergedId | FETCHMERGED-LOGICAL-c496t-ab1efeb8d410b85ddeaf344800bff5e896d67c82063cdbfb5ed3beaa812035bc3 |
| Notes | ObjectType-Article-1 SourceType-Scholarly Journals-1 ObjectType-Feature-2 content type line 23 Edited by: Victor Greiff, University of Oslo, Norway These authors have contributed equally to this work. Specialty section: This article was submitted to B Cell Biology, a section of the journal Frontiers in Immunology Reviewed by: Marcos Vieira, University of Chicago, United States; Felix Breden, Simon Fraser University, Canada |
| ORCID | 0000-0002-5456-9361 0000-0002-2686-5702 |
| OpenAccessLink | https://doaj.org/article/b00f7c8ed82444c0bc293fcbb1ebe347 |
| PMID | 29988361 |
| PQID | 2067895126 |
| PQPubID | 23479 |
| ParticipantIDs | doaj_primary_oai_doaj_org_article_b00f7c8ed82444c0bc293fcbb1ebe347 pubmedcentral_primary_oai_pubmedcentral_nih_gov_6023962 hal_primary_oai_HAL_hal_01833908v1 proquest_miscellaneous_2067895126 pubmed_primary_29988361 crossref_citationtrail_10_3389_fimmu_2018_01307 crossref_primary_10_3389_fimmu_2018_01307 |
| PublicationCentury | 2000 |
| PublicationDate | 2018-06-22 |
| PublicationDateYYYYMMDD | 2018-06-22 |
| PublicationDate_xml | – month: 06 year: 2018 text: 2018-06-22 day: 22 |
| PublicationDecade | 2010 |
| PublicationPlace | Switzerland |
| PublicationPlace_xml | – name: Switzerland |
| PublicationTitle | Frontiers in immunology |
| PublicationTitleAlternate | Front Immunol |
| PublicationYear | 2018 |
| Publisher | Frontiers Frontiers Media S.A |
| Publisher_xml | – name: Frontiers – name: Frontiers Media S.A |
| References | Li (B16) 2004; 199 Brezinschek (B8) 1995; 155 Saitou (B24) 1987; 4 Benichou (B3) 2013; 190 B29 Benichou (B1) 2012; 135 Tiegs (B15) 1993; 177 Wang (B36) 2014; 192 Cox (B10) 1994; 24 Luning Prak (B14) 2011; 1217 Yamada (B11) 1991; 173 Wesemann (B20) 2013; 501 Hoi (B7) 2013; 14 LeBien (B28) 2008; 112 Martin (B30) 2016; 7 Odegard (B22) 2006; 6 Kolaczkowski (B23) 2004; 431 Boyd (B32) 2009; 1 Briney (B34) 2012; 13 Boyd (B37) 2010; 184 Jackson (B5) 2012; 64 Glanville (B12) 2009; 106 Pallarès (B4) 1998; 15 Schelonka (B9) 2007; 37 Ye (B21) 2013; 41 Yaari (B26) 2015; 370 B19 Cohen (B2) 2017; 14 Watson (B6) 2015; 16 Elhanati (B17) 2015; 370 Louzoun (B13) 2002; 14 Liberman (B25) 2013; 4 Dunn-Walters (B35) 2010; 22 MacArthur (B31) 1991; 218 Levine (B33) 2000; 97 Liberman (B27) 2015; 44 Elhanati (B18) 2014; 111 24337376 - J Immunol. 2014 Jan 15;192(2):603-11 22622198 - Genes Immun. 2012 Sep;13(6):469-73 9619396 - Exp Clin Immunogenet. 1998;15(1):8-18 21789596 - Immunogenetics. 2012 Jan;64(1):3-14 23965619 - Nature. 2013 Sep 5;501(7465):112-5 3447015 - Mol Biol Evol. 1987 Jul;4(4):406-25 20537880 - Curr Opin Immunol. 2010 Aug;22(4):514-20 8149953 - Eur J Immunol. 1994 Apr;24(4):827-36 8459201 - J Exp Med. 1993 Apr 1;177(4):1009-20 23671333 - Nucleic Acids Res. 2013 Jul;41(Web Server issue):W34-40 2010917 - J Mol Biol. 1991 Mar 20;218(2):397-412 20495067 - J Immunol. 2010 Jun 15;184(12):6986-92 28510537 - Phys Biol. 2017 Jun 15;14(4):045003 24941953 - Proc Natl Acad Sci U S A. 2014 Jul 8;111(27):9875-80 20161664 - Sci Transl Med. 2009 Dec 23;1(12):12ra23 15496922 - Nature. 2004 Oct 21;431(7011):980-4 21251012 - Ann N Y Acad Sci. 2011 Jan;1217:96-121 23535864 - Genes Immun. 2013 Jun;14(4):271-6 26194756 - Philos Trans R Soc Lond B Biol Sci. 2015 Sep 5;370(1676):null 18725575 - Blood. 2008 Sep 1;112(5):1570-80 17345580 - Eur J Immunol. 2007 Apr;37(4):1010-21 19875695 - Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20216-21 25338678 - Genes Immun. 2015 Jan-Feb;16(1):24-34 23630353 - J Immunol. 2013 Jun 1;190(11):5567-77 1899102 - J Exp Med. 1991 Feb 1;173(2):395-407 14757741 - J Exp Med. 2004 Feb 2;199(3):337-46 24062742 - Front Immunol. 2013 Sep 17;4:274 10688906 - Proc Natl Acad Sci U S A. 2000 Mar 14;97(6):2743-8 12160645 - Semin Immunol. 2002 Jun;14(3):169-90; discussion 221-22 27994589 - Front Immunol. 2016 Dec 02;7:546 7602095 - J Immunol. 1995 Jul 1;155(1):190-202 22043864 - Immunology. 2012 Mar;135(3):183-91 26194757 - Philos Trans R Soc Lond B Biol Sci. 2015 Sep 5;370(1676):null 16868548 - Nat Rev Immunol. 2006 Aug;6(8):573-83 26586802 - Nucleic Acids Res. 2016 Mar 18;44(5):e46 |
| References_xml | – volume: 173 start-page: 395 year: 1991 ident: B11 article-title: Preferential utilization of specific immunoglobulin heavy chain diversity and joining segments in adult human peripheral blood B lymphocytes publication-title: J Exp Med doi: 10.1084/jem.173.2.395 – volume: 106 start-page: 20216 year: 2009 ident: B12 article-title: Precise determination of the diversity of a combinatorial antibody library gives insight into the human immunoglobulin repertoire publication-title: Proc Natl Acad Sci U S A doi: 10.1073/pnas.0909775106 – volume: 4 start-page: 274 year: 2013 ident: B25 article-title: Multi step selection in Ig H chains is initially focused on CDR3 and then on other CDR regions publication-title: Front Immunol doi: 10.3389/fimmu.2013.00274 – volume: 135 start-page: 183 year: 2012 ident: B1 article-title: Rep-seq: uncovering the immunological repertoire through next-generation sequencing publication-title: Immunology doi: 10.1111/j.1365-2567.2011.03527.x – volume: 190 start-page: 5567 year: 2013 ident: B3 article-title: The restricted DH gene reading frame usage in the expressed human antibody repertoire is selected based upon its amino acid content publication-title: J Immunol doi: 10.4049/jimmunol.1201929 – volume: 97 start-page: 2743 year: 2000 ident: B33 article-title: A B-cell receptor-specific selection step governs immature to mature B cell differentiation publication-title: Proc Natl Acad Sci U S A doi: 10.1073/pnas.050552997 – volume: 4 start-page: 406 year: 1987 ident: B24 article-title: The neighbor-joining method: a new method for reconstructing phylogenetic trees publication-title: Mol Biol Evol – volume: 13 start-page: 469 year: 2012 ident: B34 article-title: High-throughput antibody sequencing reveals genetic evidence of global regulation of the naive and memory repertoires that extends across individuals publication-title: Genes Immun doi: 10.1038/gene.2012.20 – volume: 218 start-page: 397 year: 1991 ident: B31 article-title: Influence of proline residues on protein conformation publication-title: J Mol Biol doi: 10.1016/0022-2836(91)90721-H – volume: 1217 start-page: 96 year: 2011 ident: B14 article-title: B cell receptor editing in tolerance and autoimmunity publication-title: Ann N Y Acad Sci doi: 10.1111/j.1749-6632.2010.05877.x – volume: 370 start-page: 20140243 year: 2015 ident: B17 article-title: Inferring processes underlying B-cell repertoire diversity publication-title: Philos Trans R Soc Lond B Biol Sci doi: 10.1098/rstb.2014.0243 – volume: 192 start-page: 603 year: 2014 ident: B36 article-title: Effects of aging, cytomegalovirus infection, and EBV infection on human B cell repertoires publication-title: J Immunol doi: 10.4049/jimmunol.1301384 – volume: 64 start-page: 3 year: 2012 ident: B5 article-title: Divergent human populations show extensive shared IGK rearrangements in peripheral blood B cells publication-title: Immunogenetics doi: 10.1007/s00251-011-0559-z – volume: 177 start-page: 1009 year: 1993 ident: B15 article-title: Receptor editing in self-reactive bone marrow B cells publication-title: J Exp Med doi: 10.1084/jem.177.4.1009 – ident: B29 – volume: 14 start-page: 045003 year: 2017 ident: B2 article-title: Converging evolution leads to near maximal junction diversity through parallel mechanisms in B and T cell receptors publication-title: Phys Biol doi: 10.1088/1478-3975/aa7366 – volume: 16 start-page: 24 year: 2015 ident: B6 article-title: Sequencing of the human IG light chain loci from a hydatidiform mole BAC library reveals locus-specific signatures of genetic diversity publication-title: Genes Immun doi: 10.1038/gene.2014.56 – volume: 44 start-page: e46 year: 2015 ident: B27 article-title: Estimate of within population incremental selection through branch imbalance in lineage trees publication-title: Nucleic Acids Res doi: 10.1093/nar/gkv1198 – volume: 1 start-page: 12ra23 year: 2009 ident: B32 article-title: Measurement and clinical monitoring of human lymphocyte clonality by massively parallel VDJ pyrosequencing publication-title: Sci Transl Med doi: 10.1126/scitranslmed.3000540 – volume: 24 start-page: 827 year: 1994 ident: B10 article-title: A directory of human germ-line Vχ segments reveals a strong bias in their usage publication-title: Eur J Immunol doi: 10.1002/eji.1830240409 – volume: 6 start-page: 573 year: 2006 ident: B22 article-title: Targeting of somatic hypermutation publication-title: Nat Rev Immunol doi: 10.1038/nri1896 – volume: 41 start-page: W34 year: 2013 ident: B21 article-title: IgBLAST: an immunoglobulin variable domain sequence analysis tool publication-title: Nucleic Acids Res doi: 10.1093/nar/gkt382 – volume: 111 start-page: 9875 year: 2014 ident: B18 article-title: Quantifying selection in immune receptor repertoires publication-title: Proc Natl Acad Sci U S A doi: 10.1073/pnas.1409572111 – volume: 37 start-page: 1010 year: 2007 ident: B9 article-title: Categorical selection of the antibody repertoire in splenic B cells publication-title: Eur J Immunol doi: 10.1002/eji.200636569 – volume: 370 start-page: 20140242 year: 2015 ident: B26 article-title: The mutation patterns in B-cell immunoglobulin receptors reflect the influence of selection acting at multiple time-scales publication-title: Philos Trans R Soc Lond B Biol Sci doi: 10.1098/rstb.2014.0242 – volume: 7 start-page: 546 year: 2016 ident: B30 article-title: Transitional B cells in early human B cell development—time to revisit the paradigm? publication-title: Front Immunol doi: 10.3389/fimmu.2016.00546 – volume: 184 start-page: 6986 year: 2010 ident: B37 article-title: Individual variation in the germline Ig gene repertoire inferred from variable region gene rearrangements publication-title: J Immunol doi: 10.4049/jimmunol.1000445 – volume: 14 start-page: 169 year: 2002 ident: B13 article-title: Analysis of B cell receptor production and rearrangement: part I. Light chain rearrangement publication-title: Semin Immunol doi: 10.1016/S1044-5323(02)00041-6 – volume: 199 start-page: 337 year: 2004 ident: B16 article-title: Editing anti-DNA B cells by Vλx publication-title: J Exp Med doi: 10.1084/jem.20031712 – volume: 501 start-page: 112 year: 2013 ident: B20 article-title: Microbial colonization influences early B-lineage development in the gut lamina propria publication-title: Nature doi: 10.1038/nature12496 – volume: 14 start-page: 271 year: 2013 ident: B7 article-title: Intrinsic bias and public rearrangements in the human immunoglobulin Vλ light chain repertoire publication-title: Genes Immun doi: 10.1038/gene.2013.10 – volume: 112 start-page: 1570 year: 2008 ident: B28 article-title: B lymphocytes: how they develop and function publication-title: Blood doi: 10.1182/blood-2008-02-078071 – volume: 155 start-page: 190 year: 1995 ident: B8 article-title: Analysis of the heavy chain repertoire of human peripheral B cells using single-cell polymerase chain reaction publication-title: J Immunol doi: 10.4049/jimmunol.155.1.190 – volume: 15 start-page: 8 year: 1998 ident: B4 article-title: The human immunoglobulin lambda variable (IGLV) genes and joining (IGLJ) segments publication-title: Exp Clin Immunogenet doi: 10.1159/000019054 – volume: 22 start-page: 514 year: 2010 ident: B35 article-title: B cell repertoire and ageing publication-title: Curr Opin Immunol doi: 10.1016/j.coi.2010.04.009 – ident: B19 – volume: 431 start-page: 980 year: 2004 ident: B23 article-title: Performance of maximum parsimony and likelihood phylogenetics when evolution is heterogeneous publication-title: Nature doi: 10.1038/nature02917 – reference: 28510537 - Phys Biol. 2017 Jun 15;14(4):045003 – reference: 20161664 - Sci Transl Med. 2009 Dec 23;1(12):12ra23 – reference: 27994589 - Front Immunol. 2016 Dec 02;7:546 – reference: 25338678 - Genes Immun. 2015 Jan-Feb;16(1):24-34 – reference: 23630353 - J Immunol. 2013 Jun 1;190(11):5567-77 – reference: 21251012 - Ann N Y Acad Sci. 2011 Jan;1217:96-121 – reference: 26194756 - Philos Trans R Soc Lond B Biol Sci. 2015 Sep 5;370(1676):null – reference: 23671333 - Nucleic Acids Res. 2013 Jul;41(Web Server issue):W34-40 – reference: 24941953 - Proc Natl Acad Sci U S A. 2014 Jul 8;111(27):9875-80 – reference: 14757741 - J Exp Med. 2004 Feb 2;199(3):337-46 – reference: 10688906 - Proc Natl Acad Sci U S A. 2000 Mar 14;97(6):2743-8 – reference: 16868548 - Nat Rev Immunol. 2006 Aug;6(8):573-83 – reference: 9619396 - Exp Clin Immunogenet. 1998;15(1):8-18 – reference: 23965619 - Nature. 2013 Sep 5;501(7465):112-5 – reference: 3447015 - Mol Biol Evol. 1987 Jul;4(4):406-25 – reference: 22622198 - Genes Immun. 2012 Sep;13(6):469-73 – reference: 20537880 - Curr Opin Immunol. 2010 Aug;22(4):514-20 – reference: 18725575 - Blood. 2008 Sep 1;112(5):1570-80 – reference: 26194757 - Philos Trans R Soc Lond B Biol Sci. 2015 Sep 5;370(1676):null – reference: 15496922 - Nature. 2004 Oct 21;431(7011):980-4 – reference: 19875695 - Proc Natl Acad Sci U S A. 2009 Dec 1;106(48):20216-21 – reference: 12160645 - Semin Immunol. 2002 Jun;14(3):169-90; discussion 221-22 – reference: 20495067 - J Immunol. 2010 Jun 15;184(12):6986-92 – reference: 24062742 - Front Immunol. 2013 Sep 17;4:274 – reference: 23535864 - Genes Immun. 2013 Jun;14(4):271-6 – reference: 2010917 - J Mol Biol. 1991 Mar 20;218(2):397-412 – reference: 7602095 - J Immunol. 1995 Jul 1;155(1):190-202 – reference: 1899102 - J Exp Med. 1991 Feb 1;173(2):395-407 – reference: 8459201 - J Exp Med. 1993 Apr 1;177(4):1009-20 – reference: 17345580 - Eur J Immunol. 2007 Apr;37(4):1010-21 – reference: 22043864 - Immunology. 2012 Mar;135(3):183-91 – reference: 24337376 - J Immunol. 2014 Jan 15;192(2):603-11 – reference: 26586802 - Nucleic Acids Res. 2016 Mar 18;44(5):e46 – reference: 21789596 - Immunogenetics. 2012 Jan;64(1):3-14 – reference: 8149953 - Eur J Immunol. 1994 Apr;24(4):827-36 |
| SSID | ssj0000493335 |
| Score | 2.2167509 |
| Snippet | The naïve immunoglobulin (IG) repertoire in the blood differs from the direct output of the rearrangement process. These differences stem from selection that... |
| SourceID | doaj pubmedcentral hal proquest pubmed crossref |
| SourceType | Open Website Open Access Repository Aggregation Database Index Database Enrichment Source |
| StartPage | 1307 |
| SubjectTerms | B cell receptor deep sequencing Immunology Life Sciences light chain Mathematics Physics rearrangement selection |
| Title | Evidence for Shaping of Light Chain Repertoire by Structural Selection |
| URI | https://www.ncbi.nlm.nih.gov/pubmed/29988361 https://www.proquest.com/docview/2067895126 https://hal.sorbonne-universite.fr/hal-01833908 https://pubmed.ncbi.nlm.nih.gov/PMC6023962 https://doaj.org/article/b00f7c8ed82444c0bc293fcbb1ebe347 |
| Volume | 9 |
| WOSCitedRecordID | wos000436132700001&url=https%3A%2F%2Fcvtisr.summon.serialssolutions.com%2F%23%21%2Fsearch%3Fho%3Df%26include.ft.matches%3Dt%26l%3Dnull%26q%3D |
| hasFullText | 1 |
| inHoldings | 1 |
| isFullTextHit | |
| isPrint | |
| journalDatabaseRights | – providerCode: PRVAON databaseName: DOAJ Directory of Open Access Journals customDbUrl: eissn: 1664-3224 dateEnd: 99991231 omitProxy: false ssIdentifier: ssj0000493335 issn: 1664-3224 databaseCode: DOA dateStart: 20100101 isFulltext: true titleUrlDefault: https://www.doaj.org/ providerName: Directory of Open Access Journals – providerCode: PRVHPJ databaseName: ROAD: Directory of Open Access Scholarly Resources customDbUrl: eissn: 1664-3224 dateEnd: 99991231 omitProxy: false ssIdentifier: ssj0000493335 issn: 1664-3224 databaseCode: M~E dateStart: 20100101 isFulltext: true titleUrlDefault: https://road.issn.org providerName: ISSN International Centre |
| link | http://cvtisr.summon.serialssolutions.com/2.0.0/link/0/eLvHCXMwrV1Lb9QwEB5BBRIXxJvwqAziwiE0ycSOcyxVVz2UCmlB2ptlO7Z2Ec2idlupF347M87uagMSXLjkkJeTbyaZb-TxNwDvlPPoHJa5tw7zOhYy17Yuc6naqomWGHfXpWYTzdmZns3azzutvrgmbJAHHoDjJoex8Tp0mgJR7QvnKUBF71xJw2Od1pET69lJpr4NvBcR5TAvSVlYexAX5-dXXMqlP_BkXTOKQ0mun6LLnIsh_2SavxdM7kSgyQO4v6aO4nB45IdwK_SP4O7QTPLmMUw2DUIF8VAxnVteCSWWUZxy_i2O5nbRC-Lb4WK1pP-ccDdimsRjWXhDTFM_HDLSE_g6Of5ydJKvuyTkvm7VKreERAxOd3VZOE3QBhuRkq6icDHKoFvVKQKwIi7iOxedDB26YC1F9gIlmeop7PXLPjznMieP2DgVOiIZso2EeiutrmXpsLLYZHCwwcz4tYQ4d7L4biiVYJRNQtkwyiahnMH77RU_BvmMv5z7kc2wPY-Fr9MOcgezdgfzL3fI4C0ZcXSPk8NTw_toIMS20NdlBm82Njb0NfEUie3D8urSsJi9JtJZqQyeDTbf3osCt9ao6Opm5A2jwcZH-sU8KXYrXkKsqhf_4w1fwj3GjMvVquoV7JGnhNdwx1-vFpcX-3C7men99DHQ9tPP41-_zhFO |
| linkProvider | Directory of Open Access Journals |
| openUrl | ctx_ver=Z39.88-2004&ctx_enc=info%3Aofi%2Fenc%3AUTF-8&rfr_id=info%3Asid%2Fsummon.serialssolutions.com&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Ajournal&rft.genre=article&rft.atitle=Evidence+for+Shaping+of+Light+Chain+Repertoire+by+Structural+Selection&rft.jtitle=Frontiers+in+immunology&rft.au=Toledano%2C+Adar&rft.au=Elhanati%2C+Yuval&rft.au=Benichou%2C+Jennifer+I+C&rft.au=Walczak%2C+Aleksandra+M&rft.date=2018-06-22&rft.issn=1664-3224&rft.eissn=1664-3224&rft.volume=9&rft.spage=1307&rft_id=info:doi/10.3389%2Ffimmu.2018.01307&rft.externalDBID=NO_FULL_TEXT |
| thumbnail_l | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/lc.gif&issn=1664-3224&client=summon |
| thumbnail_m | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/mc.gif&issn=1664-3224&client=summon |
| thumbnail_s | http://covers-cdn.summon.serialssolutions.com/index.aspx?isbn=/sc.gif&issn=1664-3224&client=summon |