OriDB Curated Paper

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The origin recognition complex interacts with a subset of metabolic genes tightly linked to origins of replication.

Erika Shor, Christopher L Warren, Joshua Tietjen, Zhonggang Hou, Ulrika Müller, Ilaria Alborelli, Florence H Gohard, Adrian I Yemm, Lev Borisov, James R Broach, Michael Weinreich, Conrad A Nieduszynski, Aseem Z Ansari, Catherine A Fox

PLoS Genet. (2009), 5(12):e1000755Data to DownloadPubMed | PubMed Central | PLoS Genet.

The origin recognition complex (ORC) marks chromosomal sites as replication origins and is essential for replication initiation. In yeast, ORC also binds to DNA elements called silencers, where its primary function is to recruit silent information regulator (SIR) proteins to establish transcriptional silencing. Indeed, silencers function poorly as chromosomal origins. Several genetic, molecular, and biochemical studies of HMR-E have led to a model proposing that when ORC becomes limiting in the cell (such as in the orc2-1 mutant) only sites that bind ORC tightly (such as HMR-E) remain fully occupied by ORC, while lower affinity sites, including many origins, lose ORC occupancy. Since HMR-E possessed a unique non-replication function, we reasoned that other tight sites might reveal novel functions for ORC on chromosomes. Therefore, we comprehensively determined ORC "affinity" genome-wide by performing an ORC ChIP-on-chip in ORC2 and orc2-1 strains. Here we describe a novel group of orc2-1-resistant ORC-interacting chromosomal sites (ORF-ORC sites) that did not function as replication origins or silencers. Instead, ORF-ORC sites were comprised of protein-coding regions of highly transcribed metabolic genes. In contrast to the ORC-silencer paradigm, transcriptional activation promoted ORC association with these genes. Remarkably, ORF-ORC genes were enriched in proximity to origins of replication and, in several instances, were transcriptionally regulated by these origins. Taken together, these results suggest a surprising connection among ORC, replication origins, and cellular metabolism.

OriDB annotation of this paper:

ARS assay

ARS409.5, ARS412, ARS415, ARS420, ARS447, ARS513.5, ARS815, ARS907, ARS916, ARS1510.5, ARS513.7

2D gel

None curated.

ChIP of replication origin proteins

ARS102, ARS103, ARS at I-17, ARS104, ARS105, ARS106, ARS107, ARS109, ARS110, ARS111, ARS at I-230, ARS200, ARS201, ARS201.5, ARS201.7, ARS202, ARS203, ARS206, ARS207, ARS207.5, ARS208, ARS at II-246, ARS209, ARS at II-301, ARS at II-366, ARS214, ARS215, ARS at II-479, ARS216, ARS219, ARS219.5, ARS220, ARS at II-695, ARS222, ARS224, ARS225, ARS228, ARS at II-812, ARS300, ARS at III-5, ARS301, ARS302, ARS303, ARS320, ARS302, ARS305, ARS306, ARS309, ARS at III-146, ARS at III-138, ARS at III-193, ARS313, ARS314, ARS at III-200, ARS at III-224, ARS315, ARS317, ARS318, ARS at III-308, ARS319, ARS400, ARS404, ARS405, ARS406, ARS407, ARS409, ARS at IV-220, ARS409.5, ARS410, ARS412, ARS413, ARS415, ARS416, ARS417, ARS417.5, ARS418, ARS419, ARS420, ARS421, ARS at IV-645, ARS422, ARS at IV-721, ARS423, ARS425, ARS428, ARS429, ARS430, ARS431, ARS432, ARS432.5, ARS433, ARS434, ARS at IV-1275, ARS435, ARS437, ARS440, ARS441, ARS442, ARS446, ARS447, ARS at IV-1499, ARS at IV-1524, ARS at IV-1531, ARS at V-1, ARS503, ARS504.2, ARS at V-18, ARS507, ARS at V-68, ARS508, ARS510, ARS511, ARS512, ARS513.5, ARS513.7, ARS514, ARS516, ARS518, ARS520, ARS522, ARS523, ARS at V-576, ARS at VI-1, ARS600.1, ARS600.3, ARS600.4, ARS601, ARS602, ARS at VI-53, ARS603, ARS at VI-99, ARS at VI-99, ARS603.1, ARS603.5, ARS604, ARS605, ARS606, ARS607, ARS609, ARS610, ARS at VI-269, ARS at VII-0, ARS at VII-8, ARS700.5, ARS702, ARS704, ARS707, ARS714, ARS716, ARS717, ARS718, ARS at VII-481, ARS719, ARS720, ARS722, ARS at VII-576, ARS727, ARS728, ARS at VII-743, ARS729, ARS731, ARS at VII-883, ARS731.5, ARS at VII-970, ARS733, ARS734, ARS735, ARS735.5, ARS131a, ARS at VII-1090, ARS at VIII-1, ARS131n, ARS802, ARS at VIII-11, ARS at VIII-11, ARS804, ARS805, ARS at VIII-88, ARS at VIII-116, ARS807, ARS at VIII-135, ARS809, ARS813, ARS815, ARS816, ARS818, ARS820, ARS at VIII-452, ARS822, ARS823.5, ARS824, ARS at VIII-562, ARS at IX-1, ARS at IX-8, ARS at IX-11, ARS905, ARS at IX-52, ARS907, ARS909, ARS911, ARS912, ARS at IX-183, ARS at IX-190, ARS913, ARS at IX-238, ARS913.5, ARS914, ARS at IX-249, ARS916, ARS919, ARS920, ARS at IX-407, ARS922, ARS at IX-439, ARS1001, ARS1002, ARS1004, ARS1005, ARS1006, ARS1007, ARS at X-121, ARS at X-139, ARS1008, ARS at X-212, ARS1009, ARS1011, ARS1012, ARS1013, ARS1014, ARS1015, ARS1016, ARS1018, ARS1019, ARS1021, ARS1022, ARS at X-719, ARS1025, ARS at XI-1, ARS1103, ARS1104.5, ARS1106, ARS at XI-164, ARS at XI-170, ARS1106.7, ARS1107, ARS at XI-327, ARS1109, ARS1112, ARS1113, ARS1114, ARS1114.5, ARS at XI-463, ARS1116, ARS at XI-520, ARS1118, ARS1120, ARS at XI-633, ARS1123, ARS at XI-662, ARS at XI-662, ARS at XII-1, ARS at XII-7, ARS at XII-12, ARS at XII-31, ARS1206, ARS at XII-140, ARS1209, ARS at XII-199, ARS at XII-199, ARS1210, ARS1211, ARS1211.5, ARS at XII-282, ARS1212, ARS1213, ARS1215, ARS1216, ARS1216.5, ARS at XII-468, ARS at XII-461, ARS1217, ARS at XII-599, ARS1218, ARS1219, ARS at XII-618, ARS1220, ARS1222, ARS1223, ARS1226, ARS1227, ARS at XII-839, ARS1227.5, ARS at XII-920, ARS1229, ARS1233, ARS at XII-1020, ARS1234, ARS1235, ARS at XII-1056, ARS at XII-1064, ARS at XII-1071, ARS at XII-1078, ARS at XIII-1, ARS at XIII-6, ARS at XIII-25, ARS1303, ARS1304, ARS1304.7, ARS1307, ARS1307.5, ARS1308, ARS1309, ARS1310, ARS1312, ARS at XIII-373, ARS1315, ARS at XIII-478, ARS1319, ARS1320, ARS1322, ARS1323, ARS1324, ARS1325, ARS1326, ARS1327, ARS at XIII-763, ARS1329, ARS1330, ARS1332, ARS at XIII-923, ARS at XIV-1, ARS at XIV-9, ARS1405, ARS at XIV-36, ARS at XIV-36, ARS1406, ARS1407, ARS at XIV-116, ARS1411, ARS1412, ARS1413, ARS at XIV-253, ARS1414, ARS1415, ARS1417, ARS1419, ARS1420, ARS at XIV-516, ARS1421, ARS1422, ARS at XIV-556, ARS1424, ARS1426, ARS at XIV-656, ARS1427, ARS1428.5, ARS1429, ARS at XIV-773, ARS at XIV-783, ARS at XV-1, ARS at XV-11, ARS at XV-19, ARS1507, ARS1508, ARS1509, ARS at XV-160, ARS1510, ARS1510.5, ARS1511, ARS1512, ARS1513, ARS at XV-348, ARS1513.5, ARS at XV-445, ARS1515.5, ARS1516, ARS1517, ARS at XV-605, ARS1519, ARS1520, ARS1521, ARS at XV-763, ARS1523, ARS1524, ARS1525, ARS1526, ARS at XV-884, ARS at XV-900, ARS1528, ARS1529.5, ARS at XV-1081, ARS at XV-1091, ARS at XVI-1, ARS1601, ARS1601, ARS1604, ARS at XVI-57, ARS1605, ARS1607, ARS at XVI-163, ARS at XVI-262, ARS1614, ARS at XVI-299, ARS at XVI-377, ARS1618, ARS1618.5, ARS1619, ARS at XVI-428, ARS at XVI-440, ARS at XVI-454, ARS1620.5, ARS1621, ARS at XVI-553, ARS at XVI-560, ARS1622, ARS1622.5, ARS1622.7, ARS1623, ARS1624, ARS at XVI-691, ARS1625, ARS at XVI-701, ARS1626.5, ARS1627, ARS at XVI-824, ARS at XVI-873, ARS1630, ARS1631, ARS at XVI-942, ARS at XVI-947

Replication timing

None curated.

Replication in hydroxyurea

None curated.

Predicted origins

None curated.

Confirmed sequence element

None curated.

Predicted sequence element

None curated.

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