Note to users. If you're seeing this message, it means that your browser cannot find this page's style/presentation instructions -- or possibly that you are using a browser that does not support current Web standards. Find out more about why this message is appearing, and what you can do to make your experience of our site the best it can be.
An Extensive Class of Small RNAs in Caenorhabditis elegans
Rosalind C. Lee,Victor Ambros*
The lin-4 and let-7 antisense RNAs are
temporal regulators that control the timing of developmental events in
Caenorhabditiselegans by inhibiting translation of target
mRNAs. let-7 RNA isconserved among bilaterian animals,
suggesting that this classof small RNAs [microRNAs (miRNAs)] is
evolutionarily ancient.Using bioinformatics and cDNA cloning, we found
15 new miRNA genesin C. elegans. Several of these genes
express small transcriptsthat vary in abundance during C. elegans larval development, andthree of them have apparent
homologs in mammals and/or insects.Small noncoding RNAs of the miRNA
class appear to be numerousand diverse.
Dartmouth Medical School, Department of Genetics, Hanover, NH
03755, USA.
*
To whom correspondence should be addressed. E-mail:
vambros{at}dartmouth.edu
The editors suggest the following Related Resources on Science sites:
In Science Magazine
PERSPECTIVES
Gary Ruvkun (26 October 2001) Science294 (5543), 797.
[DOI: 10.1126/science.1066315] |Summary »|Full Text »|PDF »
REPORTS
Mariana Lagos-Quintana, Reinhard Rauhut, Winfried Lendeckel, and Thomas Tuschl (26 October 2001) Science294 (5543), 853.
[DOI: 10.1126/science.1064921] |Abstract »|Full Text »|PDF »|Supplemental Data »
REPORTS
Nelson C. Lau, Lee P. Lim, Earl G. Weinstein, and David P. Bartel (26 October 2001) Science294 (5543), 858.
[DOI: 10.1126/science.1065062] |Abstract »|Full Text »|PDF »|Supplemental Data »
Global profiling of miRNAs and the hairpin precursors: insights into miRNA processing and novel miRNA discovery.
N. Li, X. You, T. Chen, S. D. Mackowiak, M. R. Friedlander, M. Weigt, H. Du, A. Gogol-Doring, Z. Chang, C. Dieterich, et al. (2013)
Nucleic Acids Res.
41, 3619-3634
|Abstract »|Full Text »|PDF »
Minireview: MIRomics in Endocrinology: A Novel Approach for Modeling Endocrine Diseases.
P. M. Szabo, H. Butz, P. Igaz, K. Racz, L. Hunyady, and A. Patocs (2013)
Mol. Endocrinol.
27, 573-585
|Abstract »|Full Text »|PDF »
Expression of microRNA and microRNA processing machinery genes during early quail (Coturnix japonica) embryo development.
H. Kocamis, M. M. Hossain, M. U. Cinar, D. Salilew-Wondim, A. Mohammadi-Sangcheshmeh, D. Tesfaye, M. Holker, and K. Schellander (2013)
Poult. Sci.
92, 787-797
|Abstract »|Full Text »|PDF »
High-throughput sequencing reveals extraordinary fluidity of miRNA, piRNA, and siRNA pathways in nematodes.
Z. Shi, T. A. Montgomery, Y. Qi, and G. Ruvkun (2013)
Genome Res.
23, 497-508
|Abstract »|Full Text »|PDF »
Paediatric pharmacogenomics: an overview.
D. B. Hawcutt, B. Thompson, R. L. Smyth, and M. Pirmohamed (2013)
Arch. Dis. Child.
98, 232-237
|Abstract »|Full Text »|PDF »
MicroRNA 339 down-regulates {mu}-opioid receptor at the post-transcriptional level in response to opioid treatment.
Q. Wu, C. K. Hwang, H. Zheng, Y. Wagley, H.-Y. Lin, D. K. Kim, P.-Y. Law, H. H. Loh, and L.-N. Wei (2013)
FASEB J
27, 522-535
|Abstract »|Full Text »|PDF »
Tissue-specific control of brain-enriched miR-7 biogenesis.
N. R. Choudhury, F. de Lima Alves, L. de Andres-Aguayo, T. Graf, J. F. Caceres, J. Rappsilber, and G. Michlewski (2013)
Genes & Dev.
27, 24-38
|Abstract »|Full Text »|PDF »
Reconsideration of in silico siRNA design from a perspective of heterogeneous data integration: problems and solutions.
Identification of miRNAs associated with the follicular-luteal transition in the ruminant ovary.
D. McBride, W. Carre, S. D. Sontakke, C. O. Hogg, A. Law, F. X. Donadeu, and M. Clinton (2012)
Reproduction
144, 221-233
|Abstract »|Full Text »|PDF »
Regulation of microRNA-375 by cAMP in Pancreatic {beta}-Cells.
D. M. Keller, E. A. Clark, and R. H. Goodman (2012)
Mol. Endocrinol.
26, 989-999
|Abstract »|Full Text »|PDF »
Increased Expression of MicroRNA-155 in the Serum of Women with Early-Stage Breast Cancer.
Z. Su-ying, W. Qian, G. Fen, Z. Chun-bing, and Y. Xue-wen (2012)
Lab Med
43, 177-180
|Abstract »|Full Text »|PDF »
LocARNA-P: Accurate boundary prediction and improved detection of structural RNAs.
S. Will, T. Joshi, I. L. Hofacker, P. F. Stadler, and R. Backofen (2012)
RNA
18, 900-914
|Abstract »|Full Text »|PDF »
The RDE-10/RDE-11 complex triggers RNAi-induced mRNA degradation by association with target mRNA in C. elegans.
H. Yang, Y. Zhang, J. Vallandingham, H. Li, L. Florens, and H. Y. Mak (2012)
Genes & Dev.
26, 846-856
|Abstract »|Full Text »|PDF »
Host gene targets for novel influenza therapies elucidated by high-throughput RNA interference screens.
V. A. Meliopoulos, L. E. Andersen, K. F. Birrer, K. J. Simpson, J. W. Lowenthal, A. G. D. Bean, J. Stambas, C. R. Stewart, S. M. Tompkins, V. W. van Beusechem, et al. (2012)
FASEB J
26, 1372-1386
|Abstract »|Full Text »|PDF »
miR-30 Family Members Negatively Regulate Osteoblast Differentiation.
T. Wu, H. Zhou, Y. Hong, J. Li, X. Jiang, and H. Huang (2012)
J. Biol. Chem.
287, 7503-7511
|Abstract »|Full Text »|PDF »
Decoding the Cardiac Message: The 2011 Thomas W. Smith Memorial Lecture.
MicroRNA Molecular Profiles Associated with Diagnosis, Clinicopathologic Criteria, and Overall Survival in Patients with Resectable Pancreatic Ductal Adenocarcinoma.
N. B. Jamieson, D. C. Morran, J. P. Morton, A. Ali, E. J. Dickson, C. R. Carter, O. J. Sansom, T. R. J. Evans, C. J. McKay, and K. A. Oien (2012)
Clin. Cancer Res.
18, 534-545
|Abstract »|Full Text »|PDF »
miRDeep2 accurately identifies known and hundreds of novel microRNA genes in seven animal clades.
M. R. Friedlander, S. D. Mackowiak, N. Li, W. Chen, and N. Rajewsky (2012)
Nucleic Acids Res.
40, 37-52
|Abstract »|Full Text »|PDF »
MiR-145 directly targets p70S6K1 in cancer cells to inhibit tumor growth and angiogenesis.
Q. Xu, L.-Z. Liu, X. Qian, Q. Chen, Y. Jiang, D. Li, L. Lai, and B.-H. Jiang (2012)
Nucleic Acids Res.
40, 761-774
|Abstract »|Full Text »|PDF »
A bias-reducing strategy in profiling small RNAs using Solexa.
G. Sun, X. Wu, J. Wang, H. Li, X. Li, H. Gao, J. Rossi, and Y. Yen (2011)
RNA
17, 2256-2262
|Abstract »|Full Text »|PDF »
A liver-specific microRNA binds to a highly conserved RNA sequence of hepatitis B virus and negatively regulates viral gene expression and replication.
Y. Chen, A. Shen, P. J. Rider, Y. Yu, K. Wu, Y. Mu, Q. Hao, Y. Liu, H. Gong, Y. Zhu, et al. (2011)
FASEB J
25, 4511-4521
|Abstract »|Full Text »|PDF »
Epigenetic and molecular profiles of erythroid cells after hydroxyurea treatment in sickle cell anemia.
A. L. Walker, S. Steward, T. A. Howard, N. Mortier, M. Smeltzer, Y.-D. Wang, and R. E. Ware (2011)
Blood
118, 5664-5670
|Abstract »|Full Text »|PDF »
Reduced miR-128 in Breast Tumor-Initiating Cells Induces Chemotherapeutic Resistance via Bmi-1 and ABCC5.
Y. Zhu, F. Yu, Y. Jiao, J. Feng, W. Tang, H. Yao, C. Gong, J. Chen, F. Su, Y. Zhang, et al. (2011)
Clin. Cancer Res.
17, 7105-7115
|Abstract »|Full Text »|PDF »
RNAcentral: A vision for an international database of RNA sequences.
A. Bateman, S. Agrawal, E. Birney, E. A. Bruford, J. M. Bujnicki, G. Cochrane, J. R. Cole, M. E. Dinger, A. J. Enright, P. P. Gardner, et al. (2011)
RNA
17, 1941-1946
|Abstract »|Full Text »|PDF »
Circulating MicroRNAs in Cardiovascular Disease.
D. D. McManus and V. Ambros (2011)
Circulation
124, 1908-1910
|Full Text »|PDF »
Comprehensive analysis of mammalian miRNA* species and their role in myeloid cells.
F. Kuchenbauer, S. M. Mah, M. Heuser, A. McPherson, J. Ruschmann, A. Rouhi, T. Berg, L. Bullinger, B. Argiropoulos, R. D. Morin, et al. (2011)
Blood
118, 3350-3358
|Abstract »|Full Text »|PDF »
Deep small RNA sequencing from the nematode Ascaris reveals conservation, functional diversification, and novel developmental profiles.
J. Wang, B. Czech, A. Crunk, A. Wallace, M. Mitreva, G. J. Hannon, and R. E. Davis (2011)
Genome Res.
21, 1462-1477
|Abstract »|Full Text »|PDF »
Selection Fine-Tunes the Expression of MicroRNA Target Genes in Arabidopsis thaliana.
MicroRNA-372 Is Down-regulated and Targets Cyclin-dependent Kinase 2 (CDK2) and Cyclin A1 in Human Cervical Cancer, Which May Contribute to Tumorigenesis.
R.-Q. Tian, X.-H. Wang, L.-J. Hou, W.-H. Jia, Q. Yang, Y.-X. Li, M. Liu, X. Li, and H. Tang (2011)
J. Biol. Chem.
286, 25556-25563
|Abstract »|Full Text »|PDF »
Comprehensive microRNA analysis in bleomycin-induced pulmonary fibrosis identifies multiple sites of molecular regulation.
T. Xie, J. Liang, R. Guo, N. Liu, P. W. Noble, and D. Jiang (2011)
Physiol Genomics
43, 479-487
|Abstract »|Full Text »|PDF »
MicroRNA fate upon targeting with anti-miRNA oligonucleotides as revealed by an improved Northern-blot-based method for miRNA detection.
A. G. Torres, M. M. Fabani, E. Vigorito, and M. J. Gait (2011)
RNA
17, 933-943
|Abstract »|Full Text »|PDF »
Non-invasive aneuploidy detection using free fetal DNA and RNA in maternal plasma: recent progress and future possibilities.
A. T. J. I. Go, J. M. G. van Vugt, and C. B. M. Oudejans (2011)
Hum. Reprod. Update
17, 372-382
|Abstract »|Full Text »|PDF »
Phosphoglucose Isomerase/Autocrine Motility Factor Mediates Epithelial-Mesenchymal Transition Regulated by miR-200 in Breast Cancer Cells.
A. Ahmad, A. Aboukameel, D. Kong, Z. Wang, S. Sethi, W. Chen, F. H. Sarkar, and A. Raz (2011)
Cancer Res.
71, 3400-3409
|Abstract »|Full Text »|PDF »
A Runx2/miR-3960/miR-2861 Regulatory Feedback Loop during Mouse Osteoblast Differentiation.
R. Hu, W. Liu, H. Li, L. Yang, C. Chen, Z.-Y. Xia, L.-J. Guo, H. Xie, H.-D. Zhou, X.-P. Wu, et al. (2011)
J. Biol. Chem.
286, 12328-12339
|Abstract »|Full Text »|PDF »
Improved annotation of C. elegans microRNAs by deep sequencing reveals structures associated with processing by Drosha and Dicer.
C. Yu, W.-P. Chen, and X.-H. Wang (2011)
Journal of International Medical Research
39, 1-9
|Abstract »|PDF »
Deep annotation of Drosophila melanogaster microRNAs yields insights into their processing, modification, and emergence.
E. Berezikov, N. Robine, A. Samsonova, J. O. Westholm, A. Naqvi, J.-H. Hung, K. Okamura, Q. Dai, D. Bortolamiol-Becet, R. Martin, et al. (2011)
Genome Res.
21, 203-215
|Abstract »|Full Text »|PDF »
mut-16 and other mutator class genes modulate 22G and 26G siRNA pathways in Caenorhabditis elegans.
C. Zhang, T. A. Montgomery, H. W. Gabel, S. E. J. Fischer, C. M. Phillips, N. Fahlgren, C. M. Sullivan, J. C. Carrington, and G. Ruvkun (2011)
PNAS
108, 1201-1208
|Abstract »|Full Text »|PDF »
C. Y. Park, Y. S. Choi, and M. T. McManus (2010)
Hum. Mol. Genet.
19, R169-R175
|Abstract »|Full Text »|PDF »
Muscle specific microRNAs are regulated by endurance exercise in human skeletal muscle.
S. Nielsen, C. Scheele, C. Yfanti, T. Akerstrom, A. R. Nielsen, B. K. Pedersen, and M. Laye (2010)
J. Physiol.
588, 4029-4037
|Abstract »|Full Text »|PDF »
High-Risk Human Papillomavirus Reduces the Expression of MicroRNA-218 in Women with Cervical Intraepithelial Neoplasia.
Y. Li, J. Liu, C. Yuan, B. Cui, X. Zou, and Y. Qiao (2010)
Journal of International Medical Research
38, 1730-1736
|Abstract »|PDF »
Down-Regulation of Wee1 Kinase by a Specific Subset of microRNA in Human Sporadic Pituitary Adenomas.
H. Butz, I. Liko, S. Czirjak, P. Igaz, M. M. Khan, V. Zivkovic, K. Balint, M. Korbonits, K. Racz, and A. Patocs (2010)
J. Clin. Endocrinol. Metab.
95, E181-E191
|Abstract »|Full Text »|PDF »
Comprehensive Analysis of Simple Sequence Repeats in Pre-miRNAs.
M. Chen, Z. Tan, G. Zeng, and J. Peng (2010)
Mol. Biol. Evol.
27, 2227-2232
|Abstract »|Full Text »|PDF »
Proinflammatory Role for let-7 MicroRNAS in Experimental Asthma.
S. Polikepahad, J. M. Knight, A. O. Naghavi, T. Oplt, C. J. Creighton, C. Shaw, A. L. Benham, J. Kim, B. Soibam, R. A. Harris, et al. (2010)
J. Biol. Chem.
285, 30139-30149
|Abstract »|Full Text »|PDF »
MicroRNA171c-Targeted SCL6-II, SCL6-III, and SCL6-IV Genes Regulate Shoot Branching in Arabidopsis.
CREB up-regulates long non-coding RNA, HULC expression through interaction with microRNA-372 in liver cancer.
J. Wang, X. Liu, H. Wu, P. Ni, Z. Gu, Y. Qiao, N. Chen, F. Sun, and Q. Fan (2010)
Nucleic Acids Res.
38, 5366-5383
|Abstract »|Full Text »|PDF »
Fluorescence-Based Codetection with Protein Markers Reveals Distinct Cellular Compartments for Altered MicroRNA Expression in Solid Tumors.
L. F. Sempere, M. Preis, T. Yezefski, H. Ouyang, A. A. Suriawinata, A. Silahtaroglu, J. R. Conejo-Garcia, S. Kauppinen, W. Wells, and M. Korc (2010)
Clin. Cancer Res.
16, 4246-4255
|Abstract »|Full Text »|PDF »
DGCR8 recognizes primary transcripts of microRNAs through highly cooperative binding and formation of higher-order structures.
M. Faller, D. Toso, M. Matsunaga, I. Atanasov, R. Senturia, Y. Chen, Z. H. Zhou, and F. Guo (2010)
RNA
16, 1570-1583
|Abstract »|Full Text »|PDF »
In Vitro and In Vivo Characterization of MicroRNA-Targeted Alphavirus Replicon and Helper RNAs.
K. I. Kamrud, V. M. Coffield, G. Owens, C. Goodman, K. Alterson, M. Custer, M. A. Murphy, W. Lewis, S. Timberlake, E. K. Wansley, et al. (2010)
J. Virol.
84, 7713-7725
|Abstract »|Full Text »|PDF »
Misexpression of miR482, miR1512, and miR1515 Increases Soybean Nodulation.
H. Li, Y. Deng, T. Wu, S. Subramanian, and O. Yu (2010)
Plant Physiology
153, 1759-1770
|Abstract »|Full Text »|PDF »
The Conserved miR-51 microRNA Family Is Redundantly Required for Embryonic Development and Pharynx Attachment in Caenorhabditis elegans.
W. R. Shaw, J. Armisen, N. J. Lehrbach, and E. A. Miska (2010)
Genetics
185, 897-905
|Abstract »|Full Text »|PDF »
The microRNA miR-124 controls gene expression in the sensory nervous system of Caenorhabditis elegans.
A. M. Clark, L. D. Goldstein, M. Tevlin, S. Tavare, S. Shaham, and E. A. Miska (2010)
Nucleic Acids Res.
38, 3780-3793
|Abstract »|Full Text »|PDF »
Mammalian microRNAs: experimental evaluation of novel and previously annotated genes.
H. R. Chiang, L. W. Schoenfeld, J. G. Ruby, V. C. Auyeung, N. Spies, D. Baek, W. K. Johnston, C. Russ, S. Luo, J. E. Babiarz, et al. (2010)
Genes & Dev.
24, 992-1009
|Abstract »|Full Text »|PDF »
Reprogramming of miRNA networks in cancer and leukemia.
S. Volinia, M. Galasso, S. Costinean, L. Tagliavini, G. Gamberoni, A. Drusco, J. Marchesini, N. Mascellani, M. E. Sana, R. Abu Jarour, et al. (2010)
Genome Res.
20, 589-599
|Abstract »|Full Text »|PDF »
MicroRNA-155 Functions as an OncomiR in Breast Cancer by Targeting the Suppressor of Cytokine Signaling 1 Gene.
S. Jiang, H. W. Zhang, M. H. Lu, X. H. He, Y. Li, H. Gu, M. F. Liu, and E. D. Wang (2010)
Cancer Res.
70, 3119-3127
|Abstract »|Full Text »|PDF »
Modulation of mismatch repair and genomic stability by miR-155.
N. Valeri, P. Gasparini, M. Fabbri, C. Braconi, A. Veronese, F. Lovat, B. Adair, I. Vannini, F. Fanini, A. Bottoni, et al. (2010)
PNAS
107, 6982-6987
|Abstract »|Full Text »|PDF »
Strengths and Limitations of Laboratory Procedures for MicroRNA Detection.
J. Koshiol, E. Wang, Y. Zhao, F. Marincola, and M. T. Landi (2010)
Cancer Epidemiol. Biomarkers Prev.
19, 907-911
|Abstract »|Full Text »|PDF »
Global Phosphoproteomics Identifies a Major Role for AKT and 14-3-3 in Regulating EDC3.
M. Larance, A. F. Rowland, K. L. Hoehn, D. T. Humphreys, T. Preiss, M. Guilhaus, and D. E. James (2010)
Mol. Cell. Proteomics
9, 682-694
|Abstract »|Full Text »|PDF »
The role of let-7 in cell differentiation and cancer.
B. Boyerinas, S.-M. Park, A. Hau, A. E Murmann, and M. E Peter (2010)
Endocr. Relat. Cancer
17, F19-F36
|Abstract »|Full Text »|PDF »
The role of microRNAs in endometriosis and associated reproductive conditions.
E. M. C. Ohlsson Teague, C. G. Print, and M. L. Hull (2010)
Hum. Reprod. Update
16, 142-165
|Abstract »|Full Text »|PDF »
Sequence-non-specific effects of RNA interference triggers and microRNA regulators.
M. Olejniczak, P. Galka, and W. J. Krzyzosiak (2010)
Nucleic Acids Res.
38, 1-16
|Abstract »|Full Text »|PDF »
Sorting of Drosophila small silencing RNAs partitions microRNA* strands into the RNA interference pathway.
M. Ghildiyal, J. Xu, H. Seitz, Z. Weng, and P. D. Zamore (2010)
RNA
16, 43-56
|Abstract »|Full Text »|PDF »
microRNAs in the Testis: Building Up Male Fertility.