Knowledge (XXG)

Talk:Obsolete models of DNA structure

Source 📝

370: 290: 262: 346: 1083:, thanks for your input and addition to the article. IIRC, there was a three-strand DNA structure proposed by Linus Pauling before Watson and Crick's model was published, which had protonated phosphates at the centre, linked by hydrogen bonds. I don't recall if it was a helix, though. Do you think this and other early DNA structures belong here, rather than just a focus on the 1970s work and since? 406: 231: 759:
So I've been looking up the history of this area and doing some updates to the organisation of the article to focus a bit more on the historical context of why the theories were initially proposed in the '70s. I think it's probably worthwhile separating which elements are obsolete models before the
1063:
I would say that self-citation is justified to support non-controversial statements, however they shouldn't be the sole support for any contentious claim. Such citations could be appropriate as part of a section discussing the modern incarnations of anti-helicism as a fringe theory, but not to
452:, and the implications for unwinding in bacterial chromosome replication. We need to have a section about that. These topics definitely have to be areas of intense ongoing research right now; any sources or background from anyone familiar with these topics would be greatly appreciated. 1213:
I'm not sure that expanding the scope of this article to include the Pauling structure is a good idea, since the two are completely unrelated except for both being obsolete. In fact, I think there's a good opportunity to create a new article on
821:
Yes, ironically, the current incarnation as a fringe theory is sufficiently fringe that it'd probably be non-notable in the absence of the historical relevance. The most recent publication on the topic in 2018 was in a journal that also
164: 764:
B-DNA became overwhelming, and which are modern day fringe theories (though there's probably no hard boundary between the two). As well as how to structure the History section, it will also affect whether the article is just in
787:
I've found this to be a fascinating topic since I came across it. I think it's telling that the non-helical models were taken seriously enough in the 1970s that Crick felt the need to write a paper specifically to refute it
379: 276: 885:, which is new to me as a publisher doing peer review after publication. Two reviewers raised issues needing change with that paper and the third rejected it outright. The book chapter by Xu is published by 336: 1193:
I'll first have a go at stripping it back to re-balance first. If possible, I prefer to preserve the history, but TNT can be a backup option if it still ends up accumulating fringe or POV material.
1294: 1097:
It's an odd mix I agree. The page was originally just the contemporary 'anti-helicist' material, and the historical work (like Pauling's triplex) was added later. However, the Pauling triplex
737: 158: 55: 1264: 330: 1049:
is to consider an article 'published' (and included in pubmed) only if it has two ticks or one tick and two question marks and the author has not responded to those. In this case,
355: 272: 800:, but I haven't really looked. The treatment of the Wu and Xu papers is undue; they probably each deserve a sentence or two in the context of it being a fringe theory. 1299: 1140:. Both of these edits relate directly to the topic in this thread, so I wonder if you would like to make any comments on the various issues raised here? Thanks. 201: 306: 90: 797:
For the more recent fringe-science incarnation, I wonder how many third-party sources there are about it? The only one I'm aware of is the Gautham comment
1259: 297: 267: 1274: 360: 96: 1102: 1060:
article, MDPI is a very mixed bag publisher. Although I've certainly found high-quality articles in their journals, but plenty of very dodgy ones.
968: 434: 1067:
My opinion is that due weight would be to summarise the post-1970s information to a paragraph or two about the persistence of the fringe theory.
1279: 589: 179: 1106: 766: 710: 146: 972: 1289: 949: 384: 41: 834:) across multiple internet forums and a kickstarter campaign, so not sure that aspect is notable despite being an interesting phenomenon. 979:
I will cross-post requesting help from the Science RD thread, and the Chemistry, Genetics, and Molecular and Cell Biology WikiProjects.
876: 826:! For contemporary general public discussion, I've done some google and google-news searches, but only found posts by a single person ( 730: 1269: 110: 794:
IIRC gives a good historical perspective on this. There's a lot of room to improve this article to give the details of this debate.
115: 31: 369: 140: 35: 542:
Coelho, P. A.; Queiroz-Machado, J.; Carmo, A. M.; Moutinho-Pereira, S.; Maiato, H.; Sunkel, C. E. (2008). Pellman, David (ed.).
85: 1229: 1208: 1194: 1110: 1080: 1068: 835: 811: 774: 484: 463: 242: 1175: 136: 1046: 76: 1284: 745: 186: 1218:(or a similar title), since there's more than enough history to be covered about each obsolete structure individually. 975:
lists the article, when I click on it I get a "File Not Exists" notice... and the same for other articles I've tried.
625:
Kim, R. A.; Wang, J. C. (1989). "Function of DNA topoisomerases as replication swivels in Saccharomyces cerevisiae".
1215: 196: 120: 936:
If user Ycxu2019 is in fact the author Xu You Cheng of references 21, 34, 35, 37, and 38, then we appear to have
210: 879:
issue. In correcting the refs, I noticed that reference 36, on which Xu has commented (reference 37), is from
798: 248: 152: 831: 770: 741: 653:
Nitiss, J. L. (1998). "Investigating the biological functions of DNA topoisomerases in eukaryotic cells".
448:
So, the reason that mainstream scientists lost interest in the non-helical structure was the discovery of
66: 583: 305:
on Knowledge (XXG). If you would like to participate, please visit the project page, where you can join
1050: 1014: 941: 81: 1105:), so the page title might be better as 'obsolete/previous/ models of DNA structures' or similar (per 890: 230: 1006: 864: 860: 172: 1183: 919: 437:
for that content in the latter page, and it must not be deleted as long as the latter page exists.
1171: 1010: 895: 215: 964: 957: 886: 1234: 1201: 1188: 1149: 1117: 1092: 1075: 1030: 988: 842: 816: 781: 749: 489: 468: 961: 954: 792: 707: 691: 642: 614: 572: 531: 302: 62: 17: 1179: 1145: 1088: 1026: 984: 683: 662: 634: 606: 563: 555: 523: 214: 212: 1162: 1018: 937: 930: 289: 261: 912: 726:
The following Wikimedia Commons file used on this page has been nominated for deletion:
610: 1219: 827: 801: 567: 543: 474: 453: 704:
Untangling the Double Helix. DNA Entanglement and the Action of the DNA Topoisomerases
666: 345: 1253: 1167: 1129: 923: 904: 881: 674:
Wang, J. C. (2002). "Cellular roles of dna topoisomerases: A molecular perspective".
638: 527: 449: 422: 789: 559: 473:
I am going to start collecting some sources below; please feel free to add more.
1141: 1084: 1022: 980: 1053:
should be treated as a preprint with significant concerns raised by reviewers.
544:"Dual Role of Topoisomerase II in Centromere Resolution and Aurora B Activity" 514:
Champoux JJ (2001). "DNA topoisomerases: structure, function, and mechanism".
498: 694: 575: 534: 1013:, inviting his participation in this discussion and advising of issues of 645: 617: 823: 687: 655:
Biochimica et Biophysica Acta (BBA) - Gene Structure and Expression
499:"Unwinding the DNA Topoisomerase Story: the Work of James C. Wang" 497:
Kresge, Nicole; Simoni, Robert D.; Hill, Robert L. (1 June 2007).
900: 722:
A Commons file used on this page has been nominated for deletion
706:. Cold Spring Harbor, NY: Cold Spring Harbor Laboratory Press. 400: 224: 216: 26: 947:
I note that reference 21 refers to a red-linked journal (the
969:
International Academy of Science, Engineering and Technology
368: 344: 922:
or worse? It's not my area but I thought the discovery of
1165:
the edits and selectively restore what's salvageable.
1137: 1133: 907:, and is dated 25 November 2019. My concerns include: 872: 868: 856: 430: 426: 417: 412: 171: 950:
International Journal of Applied and Natural Sciences
301:, a collaborative effort to improve the coverage of 1295:
WikiProject Molecular and Cellular Biology articles
185: 335:This article has not yet received a rating on the 926:ended the concerns about helixes and replication. 44:for general discussion of the article's subject. 911:Is this material suitable for inclusion under 736:Participate in the deletion discussion at the 1265:Unknown-importance Molecular Biology articles 315:Knowledge (XXG):WikiProject Molecular Biology 8: 1161:If there are other issues, my opinion is to 1132:, I note that you have recently edited to 859:to copy edit and tidy references added by 597:Gellert, M. (1981). "DNA Topoisomerases". 404: 256: 824:offers to ghost-write student assignments 566: 380:the Molecular and Cell Biology task force 755:Evolution from obsolete to fringe theory 411:Text and/or other creative content from 1300:All WikiProject Molecular Biology pages 258: 228: 1064:support statements of scientific fact. 581: 318:Template:WikiProject Molecular Biology 1107:Category:Obsolete_scientific_theories 767:Category:Obsolete scientific theories 676:Nature Reviews Molecular Cell Biology 7: 295:This article is within the scope of 611:10.1146/annurev.bi.50.070181.004311 418:Non-helical models of DNA structure 247:It is of interest to the following 34:for discussing improvements to the 1260:C-Class Molecular Biology articles 1051:doi:10.12688/f1000research.18134.1 588:: CS1 maint: unflagged free DOI ( 25: 933:and being weighted appropriately? 61:New to Knowledge (XXG)? Welcome! 1275:Low-importance Genetics articles 528:10.1146/annurev.biochem.70.1.369 288: 260: 229: 56:Click here to start a new topic. 36:Obsolete models of DNA structure 867:. Ycxu2019 had asked for help 503:Journal of Biological Chemistry 1216:Pauling DNA structure proposal 18:Talk:Non-helical DNA structure 1: 1280:WikiProject Genetics articles 1235:00:22, 20 December 2019 (UTC) 1202:10:50, 19 December 2019 (UTC) 1189:02:38, 14 December 2019 (UTC) 1150:02:35, 14 December 2019 (UTC) 1118:06:47, 15 December 2019 (UTC) 1093:01:59, 14 December 2019 (UTC) 1076:06:52, 13 December 2019 (UTC) 1031:02:35, 14 December 2019 (UTC) 989:04:08, 13 December 2019 (UTC) 731:Watson-Crick double helix.gif 667:10.1016/S0167-4781(98)00128-6 599:Annual Review of Biochemistry 377:This article is supported by 353:This article is supported by 309:and see a list of open tasks. 298:WikiProject Molecular Biology 53:Put new text under old text. 639:10.1016/0022-2836(89)90387-2 627:Journal of Molecular Biology 560:10.1371/journal.pbio.0060207 444:Balancing information needed 1290:Low-importance MCB articles 877:noted the apparent SELFCITE 1316: 1209:Evolution and evolvability 321:Molecular Biology articles 1270:C-Class Genetics articles 1134:remove a predatory source 421:was copied or moved into 376: 352: 334: 283: 255: 91:Be welcoming to newcomers 875:. Catslash obliged but 843:06:10, 6 July 2019 (UTC) 817:22:02, 5 July 2019 (UTC) 782:12:52, 5 July 2019 (UTC) 750:02:51, 5 July 2019 (UTC) 490:07:38, 9 June 2012 (UTC) 469:04:43, 2 June 2012 (UTC) 832:user:User:Voice_of_5-23 771:Category:Fringe science 702:Wang, James C. (2009). 356:the Genetics task force 873:Science Reference Desk 760:evidence in favour of 373: 349: 237:This article is rated 86:avoid personal attacks 967:) and publisher (the 372: 348: 241:on Knowledge (XXG)'s 111:Neutral point of view 1285:C-Class MCB articles 891:predatory publishing 889:(which redirects to 429:. The former page's 116:No original research 893:) and the paper in 851:Work from Xu, Y. C. 435:provide attribution 1005:: I have welcomed 742:Community Tech bot 516:Annu. Rev. Biochem 374: 350: 243:content assessment 97:dispute resolution 58: 1198: 1114: 1072: 1047:standard practice 971:) and that while 855:I have just made 839: 778: 712:978-0-87969-879-9 441: 440: 399: 398: 395: 394: 391: 390: 312:Molecular Biology 303:Molecular Biology 268:Molecular Biology 223: 222: 77:Assume good faith 54: 16:(Redirected from 1307: 1212: 1196: 1187: 1112: 1070: 899:is published by 869:at the Help Desk 837: 776: 716: 698: 670: 649: 621: 593: 587: 579: 570: 538: 510: 420: 408: 407: 401: 337:importance scale 323: 322: 319: 316: 313: 292: 285: 284: 279: 264: 257: 240: 234: 233: 225: 217: 190: 189: 175: 106:Article policies 27: 21: 1315: 1314: 1310: 1309: 1308: 1306: 1305: 1304: 1250: 1249: 1232: 1206: 1166: 1138:citing WP:UNDUE 853: 814: 757: 738:nomination page 724: 719: 713: 701: 673: 652: 624: 596: 580: 541: 513: 496: 487: 466: 446: 416: 405: 320: 317: 314: 311: 310: 270: 238: 219: 218: 213: 132: 127: 126: 125: 102: 72: 23: 22: 15: 12: 11: 5: 1313: 1311: 1303: 1302: 1297: 1292: 1287: 1282: 1277: 1272: 1267: 1262: 1252: 1251: 1248: 1247: 1246: 1245: 1244: 1243: 1242: 1241: 1240: 1239: 1238: 1237: 1228: 1127: 1126: 1125: 1124: 1123: 1122: 1121: 1120: 1065: 1061: 1056:Regarding the 1054: 1041:Regarding the 1039: 1038: 1037: 1036: 1035: 1034: 1033: 1011:user talk page 977: 976: 945: 934: 929:Is it meeting 927: 924:topoisomerases 916: 903:, who were on 852: 849: 848: 847: 846: 845: 828:user:notahelix 810: 795: 791:. This paper 756: 753: 734: 733: 723: 720: 718: 717: 711: 699: 688:10.1038/nrm831 682:(6): 430–440. 671: 650: 633:(2): 257–267. 622: 594: 539: 511: 493: 483: 462: 450:topoisomerases 445: 442: 439: 438: 433:now serves to 409: 397: 396: 393: 392: 389: 388: 385:Low-importance 375: 365: 364: 361:Low-importance 351: 341: 340: 333: 327: 326: 324: 307:the discussion 293: 281: 280: 265: 253: 252: 246: 235: 221: 220: 211: 209: 208: 205: 204: 192: 191: 129: 128: 124: 123: 118: 113: 104: 103: 101: 100: 93: 88: 79: 73: 71: 70: 59: 50: 49: 46: 45: 39: 24: 14: 13: 10: 9: 6: 4: 3: 2: 1312: 1301: 1298: 1296: 1293: 1291: 1288: 1286: 1283: 1281: 1278: 1276: 1273: 1271: 1268: 1266: 1263: 1261: 1258: 1257: 1255: 1236: 1231: 1226: 1225: 1224: 1217: 1210: 1205: 1204: 1203: 1200: 1192: 1191: 1190: 1185: 1181: 1177: 1173: 1169: 1164: 1160: 1159: 1158: 1157: 1156: 1155: 1154: 1153: 1152: 1151: 1147: 1143: 1139: 1135: 1131: 1119: 1116: 1108: 1104: 1100: 1096: 1095: 1094: 1090: 1086: 1082: 1079: 1078: 1077: 1074: 1066: 1062: 1059: 1055: 1052: 1048: 1045:article, the 1044: 1040: 1032: 1028: 1024: 1020: 1016: 1012: 1008: 1004: 1001: 1000: 999: 998: 997: 996: 995: 994: 993: 992: 991: 990: 986: 982: 974: 970: 966: 963: 959: 956: 952: 951: 946: 943: 939: 935: 932: 928: 925: 921: 917: 914: 910: 909: 908: 906: 902: 898: 897: 892: 888: 884: 883: 882:F1000Research 878: 874: 870: 866: 862: 858: 850: 844: 841: 833: 829: 825: 820: 819: 818: 813: 808: 807: 806: 799: 796: 793: 790: 786: 785: 784: 783: 780: 772: 769:, or also in 768: 763: 754: 752: 751: 747: 743: 739: 732: 729: 728: 727: 721: 714: 709: 705: 700: 696: 693: 689: 685: 681: 677: 672: 668: 664: 660: 656: 651: 647: 644: 640: 636: 632: 628: 623: 619: 616: 612: 608: 604: 600: 595: 591: 585: 577: 574: 569: 565: 561: 557: 553: 549: 545: 540: 536: 533: 529: 525: 521: 517: 512: 508: 504: 500: 495: 494: 492: 491: 486: 481: 480: 479: 471: 470: 465: 460: 459: 458: 451: 443: 436: 432: 428: 424: 423:DNA supercoil 419: 414: 410: 403: 402: 386: 383:(assessed as 382: 381: 371: 367: 366: 362: 359:(assessed as 358: 357: 347: 343: 342: 338: 332: 329: 328: 325: 308: 304: 300: 299: 294: 291: 287: 286: 282: 278: 274: 269: 266: 263: 259: 254: 250: 244: 236: 232: 227: 226: 207: 206: 203: 200: 198: 194: 193: 188: 184: 181: 178: 174: 170: 166: 163: 160: 157: 154: 151: 148: 145: 142: 138: 135: 134:Find sources: 131: 130: 122: 121:Verifiability 119: 117: 114: 112: 109: 108: 107: 98: 94: 92: 89: 87: 83: 80: 78: 75: 74: 68: 64: 63:Learn to edit 60: 57: 52: 51: 48: 47: 43: 37: 33: 29: 28: 19: 1222: 1221: 1195:T.Shafee(Evo 1128: 1111:T.Shafee(Evo 1098: 1069:T.Shafee(Evo 1057: 1042: 1002: 978: 948: 905:Beall's List 894: 880: 854: 836:T.Shafee(Evo 804: 803: 775:T.Shafee(Evo 761: 758: 735: 725: 703: 679: 675: 658: 654: 630: 626: 602: 598: 584:cite journal 551: 548:PLoS Biology 547: 519: 515: 506: 502: 477: 476: 472: 456: 455: 447: 413:this version 378: 354: 296: 249:WikiProjects 195: 182: 176: 168: 161: 155: 149: 143: 133: 105: 30:This is the 1015:WP:SELFCITE 1003:Note to all 942:WP:SELFCITE 605:: 879–910. 554:(8): e207. 522:: 369–413. 159:free images 42:not a forum 1254:Categories 887:IntechOpen 509:(22): e17. 1103:structure 1101:a helix ( 973:this page 965:2319-4022 960:, online 958:2319-4014 920:WP:FRINGE 857:this edit 661:: 63–20. 427:this edit 99:if needed 82:Be polite 32:talk page 1230:contribs 1168:Headbomb 1130:Headbomb 1058:Symmetry 1007:Ycxu2019 953:, print 896:Symmetry 871:and the 865:Catslash 861:Ycxu2019 812:contribs 695:12042765 576:18752348 535:11395412 485:contribs 464:contribs 273:Genetics 197:Archives 67:get help 40:This is 38:article. 1220:Antony– 1009:at his 944:issues. 802:Antony– 762:in vivo 646:2549254 618:6267993 568:2525683 475:Antony– 454:Antony– 431:history 239:C-class 165:WP refs 153:scholar 1163:WP:TNT 1142:EdChem 1085:EdChem 1081:Thomas 1043:F1000 1023:EdChem 1019:WP:COI 981:EdChem 938:WP:COI 931:WP:DUE 918:Is it 245:scale. 137:Google 1197:& 1113:& 1071:& 913:WP:RS 838:& 777:& 425:with 180:JSTOR 141:books 95:Seek 1199:Evo) 1146:talk 1136:and 1115:Evo) 1089:talk 1073:Evo) 1027:talk 1017:and 985:talk 962:ISSN 955:ISSN 940:and 901:MDPI 863:and 840:Evo) 779:Evo) 746:talk 708:ISBN 692:PMID 659:1400 643:PMID 615:PMID 590:link 573:PMID 532:PMID 173:FENS 147:news 84:and 1109:). 1099:was 1021:. 740:. — 684:doi 663:doi 635:doi 631:208 607:doi 564:PMC 556:doi 524:doi 507:282 415:of 331:??? 277:MCB 187:TWL 1256:: 1233:) 1227:(⁄ 1223:22 1182:· 1178:· 1174:· 1148:) 1091:) 1029:) 987:) 815:) 809:(⁄ 805:22 773:. 748:) 690:. 678:. 657:. 641:. 629:. 613:. 603:50 601:. 586:}} 582:{{ 571:. 562:. 550:. 546:. 530:. 520:70 518:. 505:. 501:. 488:) 482:(⁄ 478:22 467:) 461:(⁄ 457:22 387:). 363:). 275:/ 271:: 167:) 65:; 1211:: 1207:@ 1186:} 1184:b 1180:p 1176:c 1172:t 1170:{ 1144:( 1087:( 1025:( 983:( 915:? 830:/ 744:( 715:. 697:. 686:: 680:3 669:. 665:: 648:. 637:: 620:. 609:: 592:) 578:. 558:: 552:6 537:. 526:: 339:. 251:: 202:1 199:: 183:· 177:· 169:· 162:· 156:· 150:· 144:· 139:( 69:. 20:)

Index

Talk:Non-helical DNA structure
talk page
Obsolete models of DNA structure
not a forum
Click here to start a new topic.
Learn to edit
get help
Assume good faith
Be polite
avoid personal attacks
Be welcoming to newcomers
dispute resolution
Neutral point of view
No original research
Verifiability
Google
books
news
scholar
free images
WP refs
FENS
JSTOR
TWL
Archives
1

content assessment
WikiProjects
WikiProject icon

Text is available under the Creative Commons Attribution-ShareAlike License. Additional terms may apply.