RRC ID 80774
Author Mazzetto M, Gonzalez LE, Sanchez N, Reinke V.
Title Characterization of the distribution and dynamics of chromatin states in the C. elegans germline reveals substantial H3K4me3 remodeling during oogenesis.
Journal Genome Res
Abstract Chromatin organization in the C. elegans germline is tightly regulated and critical for germ cell differentiation. Although certain germline epigenetic regulatory mechanisms have been identified, how they influence chromatin structure and ultimately gene expression remains unclear, in part because most genomic studies have focused on data collected from intact worms comprising both somatic and germline tissues. We therefore analyzed histone modification and chromatin accessibility data from isolated germ nuclei representing undifferentiated proliferating and meiosis I populations to define chromatin states. We correlated these states with overall transcript abundance, spatiotemporal expression patterns, and the function of small RNA pathways. Because the essential role of the germline is to transmit genetic information and establish gene expression in the early embryo, we compared epigenetic and transcriptomic profiles from undifferentiated germ cells to those of embryos to define the epigenetic changes during this developmental transition. The active histone modification H3K4me3 shows particularly dynamic remodeling as germ cells differentiate into oocytes, which suggests a mechanism for establishing early transcription of essential genes during zygotic genome activation. This analysis highlights the dynamism of the chromatin landscape across developmental transitions and provides a resource for future investigation into epigenetic regulatory mechanisms in germ cells.
Volume 34(1)
Pages 57-69
Published 2024-2-7
DOI 10.1101/gr.278247.123
PII gr.278247.123
PMID 38164610
PMC PMC10903938
MeSH Animals Caenorhabditis elegans* / genetics Caenorhabditis elegans* / metabolism Chromatin* / genetics Chromatin* / metabolism Gene Expression Regulation, Developmental Germ Cells Histones* Oogenesis / genetics
C.elegans tm5514 tm3458 tm2784 tm2796 tm3410 tm1862 tm862 tm7834 tm5212 tm892 tm3124 tm3486 tm3951 tm3042 tm3126 tm3527 tm5382 tm3941 tm1086 tm1508 tm11562 tm12755 tm5779 tm7931 tm827 tm3468 tm3947 tm12491 tm1145 tm12696 tm10562 tm12463 tm12164 tm989 tm1763 tm3220 tm6452 tm4323 tm2253 tm2751 tm13135 tm3650 tm5092 tm12710 tm4271 tm12304 tm3943 tm6503 tm7701 tm690 tm858 tm4976 tm4511 tm12942 tm2868 tm11939 tm12649 tm5375 tm6250 tm2716 tm6983 tm3886 tm2824 tm3418 tm12869 tm2537 tm2242 tm6792 tm5254 tm4216 tm4049 tm4103 tm1713 tm1714 tm2280 tm10258 tm846 tm2605 tm423 tm6456 tm12703 tm12295 tm6589 tm2349 tm2512 tm3590 tm3535 tm2559 tm4214 tm3774 tm2447 tm4232 tm4979 tm2642 tm2663 tm6252 tm3036 tm5477 tm8847 tm3768 tm12686 tm2182 tm1296 tm13034 tm2122 tm2333 tm2420 tm12484 tm2685 tm465 tm5493 tm8539 tm7773 tm487 tm2223 tm1813 tm3136 tm7426 tm12739 tm3995 tm819 tm10035 tm6242 tm525 tm3489 tm4750 tm6995 tm5980 tm1569 tm3102 tm3641 tm5076 tm6458 tm6207 tm10078 tm2670 tm2675 tm2262 tm6637 tm1278 tm3744 tm2482 tm12172 tm3177 tm2310 tm11801 tm2573 tm3169 tm1582 tm2445 tm11896 tm2769 tm6703 tm7118 tm4546 tm2417 tm12003 tm3417 tm4506 tm6082 tm7385 tm4067 tm2920 tm6974 tm1903 tm1905 tm2625 tm3965 tm5054 tm5611 tm4809 tm2614 tm1753 tm4332 tm5593 tm5921 tm2677 tm3235 tm530 tm11570 tm5262 tm5720 tm6039 tm4896 tm2467 tm3505 tm3526 tm1131 tm1435 tm3583 tm4014 tm2812 tm3508 tm2466 tm2815 tm5515 tm1393 tm3738 tm2170 tm7780 tm1516 tm1889 tm5084 tm10651 tm1974 tm2639 tm6035 tm2353 tm12316 tm8975 tm566 tm3761 tm808 tm10979 tm6217 tm4837 tm4930 tm4649 tm2779 tm6709 tm11511 tm2649 tm7327 tm5809 tm4844 tm3129 tm3406 tm3185 tm2841 tm2292 tm6886 tm5613 tm4287 tm6510 tm3247 tm5110 tm12490 tm3473 tm11684 tm2149 tm3217 tm3683 tm2787 tm6223 tm1283 tm5441 tm8517 tm2563 tm2802 tm2443 tm2588 tm11953 tm1380 tm3392 tm1202 tm11729 tm2657 tm2923 tm3968 tm1052 tm5495 tm6350 tm305 tm2538 tm3562 tm10175 tm4275 tm4528 tm12752 tm6480 tm6304 tm5978 tm2434 tm1544 tm12069 tm2719 tm2828 tm10952 tm3442 tm2915 tm9607 tm2865 tm11707 tm851 tm3616 tm600 tm3561 tm494 tm6371 tm11661 tm2886 tm7365 tm6353 tm12582 tm2866 tm3953 tm6645 tm2551 tm321 tm2979 tm3896 tm6586 tm606 tm6018 tm4802 tm6778 tm2469 tm12596 tm3600 tm3125 tm5908 tm4814 tm8777 tm5670 tm5950 tm1105 tm3805 tm8541 tm4074 tm5200 tm1300 tm5274 tm2834 tm5457 tm646 tm10734 tm12514 tm678 tm3318 tm6738 tm5271 tm6839 tm933 tm2200 tm2198 tm10146 tm971 tm11830 tm694 tm2312 tm2598 tm13119 tm2423 tm4603 tm10496 tm6197 tm3801 tm3541 tm3542 tm1078 tm5537 tm6306 tm739 tm11879 tm12462 tm2324 tm4902 tm2346 tm4811 tm1966 tm3265 tm4853 tm2899 tm685 tm5422 tm3984 tm4878 tm1420 tm1788 tm5747 tm2314 tm12064 tm6574 tm6593 tm6897 tm6047 tm3573 tm3400 tm3316 tm1200 tm1997 tm2711 tm3545 tm872 tm2738 tm8381 tm11112 tm2713 tm2867 tm2890 tm1169 tm4455 tm1065 tm1120 tm5863 tm3122 tm969 tm2697 tm2543 tm2949 tm3677 tm6878 tm6973 tm12087 tm2458 tm2440 tm4954 tm5233 tm6295 tm3507 tm2870 tm3033 tm11669 tm1204 tm660 tm8279 tm2006 tm1458 tm2532 tm6048 tm6099 tm10470 tm5125 tm4843 tm6282 tm6390 tm2664 tm5751 tm6946 tm3858 tm2925 tm3058 tm2624 tm10888 tm3644 tm8840 tm6379 tm6298 tm10284 tm7176 tm3341 tm11771 tm619 tm7565 tm1231 tm3141 tm5618 tm5691 tm3101 tm3168 tm329 tm6558 tm1845 tm4027 tm3621 tm6365 tm4302 tm4521 tm3629 tm4083 tm12346 tm1897 tm5451