Publications

Peer-Reviewed Publications

Ziko, L, Adel M, Malash,M, Siam, R. (2019) Insights into Red Sea brine pool specialized metabolism gene clusters encoding potential metabolites for biotechnological applications and extremophile survival. Marine Drugs. Accepted.

Kegere, J, Ouf, A, Siam, R and Wael, M. (2019) Fabrication of Polyvinyl Alcohol / Chitosan / Bidens Pilosa Composite Electrospun Nanofibers with Enhanced Antibacterial Activities. American Chemical Society  Omega. Accepted.

Ziko, L, Saqr, AA, Ouf, A, Gimpel, M, Aziz, RK, Neubauer, P, Siam, R. (2019) Antibacterial and anticancer activities of orphan biosynthetic gene clusters from Atlantis II Red Sea brine pool. Microbial cell factories. 18:56 https://doi.org/10.1186/s12934-019-1103-3

Hussein, NA, Cho, S-H. Laloux, G, Siam, R, Collet , J-F. (2018) Distinct domains of Escherichia coli IgaA connect envelope stress sensing and down-regulation of the Rcs phosphorelay across subcellular compartments. PLOS Genetics. Published: May 31, 2018.

Elbehery AH, Aziz RK, Siam R. ( (2017) Insertion sequences enrichment in extreme Red sea brine pool vent. Extremophiles. Mar;21(2):271-282. doi: 10.1007/s00792-016-0900-4. 

Elbehery AH, Leak DJ, Siam R. (2017) Novel thermostable antibiotic resistance enzymes from the Atlantis II Deep Red Sea brine pool. Microb Biotechnol. 2017 Jan;10(1):189-202. doi: 10.1111/1751-7915.12468. Epub 2016 Dec 22.

Adel M, Elbehery AHA, Aziz SK, Aziz RK, Grossart H-P, Siam R. (2016) Viruses-to-mobile genetic elements skew in the deep Atlantis II brine pool sediments. Scientific Reports. 6:32704. doi: 10.1038/srep32704.

Elbaz NM, Ziko L, Siam R, Mamdouh W. (2016) Core-Shell Silver/Polymeric Nanoparticles-Based Combinatorial Therapy against Breast Cancer In-vitroScientific Reports. 6: 30729. doi:  10.1038/srep30729.

Mustafa, GA, Abd-Elgawad, A, Ouf, A, Siam, R. (2016) The Egyptian Red Sea coastal microbiome: A study revealing differential microbial responses to diverse anthropogenic pollutants. Environmental Pollution. Volume 214, Pages 892–902

The MetaSUB International Consortium. (2016) The Metagenomics and Metadesign of the Subways and Urban Biomes (MetaSUB) International Consortium inaugural meeting report. Microbiome.  3;4(1):24. doi: 10.1186/s40168-016-0168-z.

Elbehery AHA, Aziz RK, Siam R. (2016) Antibiotic resistome: improving detection and quantification accuracy for comparative metagenomics. OMICS: A Journal of Integrative Biology. 20(4): 229-238. doi:10.1089/omi.2015.0191.

​Sonbol SA, Ferreira AJS, Siam R. Red Sea Atlantis II brine pool nitrilase with unique thermostability profile and heavy metal tolerance. BMC Biotechnology. 2016;16:14. doi:10.1186/s12896-016-0244-2.

Antunes A, Alam I, Simões MF, Daniels C, Ferreira AJ, Siam R, El-Dorry H, Bajic VB. First Insights into the Viral Communities of the Deep-sea Anoxic Brines of the Red Sea. Genomics, Proteomics & Bioinformatics. 2015;13(5):304-309. doi:10.1016/j.gpb.2015.06.004.

Kopf A, Bicak M, Kottmann R, et al., 2015. The Ocean Sampling Day Consortium.
Gigascience. 2015 Jun 19;4:27. doi: 10.1186/s13742-015-0066-5. eCollection 2015.
 
Saadeldin MK, Shawer H, Mostafa A, Kassem NM, Amleh A, Siam R. (2015) New genetic variants of LATS1 detected in urinary bladder and colon cancer. Front Genet. 2015 Jan 13;5:425. doi: 10.3389/fgene.2014.00425. eCollection 2014.
 
Abdallah RZ, Adel M, Ouf A, Sayed A, Ghazy M, Alam I, Essack M, Lafi FF, Bajic VB, El-Dorry H, Siam R (2014): Aerobic Methanotrophic Communities in Red Sea Brine-Seawater Interfaces. Frontiers in Microbiology, 5:487. doi: 10.3389/fmicb.2014.00487

Mustafa GA, Abdel-Gawad A, Mahmoud, A, Siam, R (2014): Egypt’s Red Sea Coast: Phylogenetic analysis of cultured microbial consortia in industrialized sites. Frontiers in Microbiology, 5:363. doi: 10.3389/fmicb.2014.00363
 
Ngugi D, Blom J, Alam I, Rashid M, Ba-Alawi W, Zhang  G, Hikmawan T, Guan Y, Antunes, A, Siam R, El-Dorry H, Bajic VB and Stingl, U (2014): Comparative genomics reveals adaptations of a halotolerant thaumarchaeon in the interfaces of brine pools in the Red Sea. ISME Journal. 2014 Aug 8. doi: 10.1038/ismej.2014.137.
 
Ferreira AJS, Siam R, Setubal JC, Moustafa A, Sayed A, Chambergo FS, Dawe AS, Ghazy MA, Sharaf H, Ouf A, Alam I, Abdel-Haleem AM, Lehvaslaiho H, Ramadan E, Antunes A, Stingl U, Archer JAC, Jankovic BR, Sogin M, Bajic VB, El-Dorry H (2014): Core Microbial Functional Activities in Ocean Environments Revealed by Global Metagenomic Profiling Analyses. PLoS ONE. 2014 Jun 12;9(6):e97338. doi: 10.1371/journal.pone.0097338.
 
Demian P, Horton KC, Kajon A, Siam R, Hasanin AM, Elgohary Sheta A, Cornelius C, Gaynor AM. (2014) “Molecular identification of adenoviruses associated with respiratory infection in Egypt from 2003 to 2010.” BMC Infect Dis. 14(1):50.

Sayed A, Ghazy MA, Ferreira AJ, Setubal JC, Chambergo FS, Ouf A, Adel M, Dawe AS, Archer JA, Bajic VB, Siam R, El-Dorry H. (2013). A novel mercuric reductase from the unique deep brine environment of Atlantis II in the Red Sea. J Biol Chem. 2013 Nov 26. [Epub ahead of print]

Mohamed YM, Ghazy MA, Sayed A, Ouf A, El-Dorry H, Siam R. (2013) “Isolation and characterization of a heavy metal-resistant, thermophilic esterase from a Red Sea Brine Pool”. Scientific Reports 3, Article number: 3358 doi:10.1038/srep03358

Thompson LR, Field C, Romanuk T, Ngugi D, Siam R, El Dorry H, Stingl U. (2013). Patterns of ecological specialization amongst microbial populations in the Red Sea and diverse oligotrophic marine environments. Ecol Evol. 3(6):1780-97. doi: 10.1002/ece3.593.

Siam R, Mustafa GA, Sharaf H, Moustafa A, Ramadan AR, et al. (2012). Unique Prokaryotic Consortia in Geochemically Distinct Sediments from Red Sea Atlantis II and Discovery Deep Brine Pools. PLoS ONE 7(8): e42872. doi:10.1371/journal.pone.004287

Antunes A, Alam I, El Dorry H, Siam R, Robertson A, Bajic VB, Stingl U. (2011). Genome sequence of Haloplasma contractile, an unusual contractile bacterium from a deep-sea anoxic brine lake. Journal of Bacteriology. 193(17):4551-2.

ElHefnawi M, Hassan N, Kamar M, Siam R, Remoli AL, El-Azab I, AlAidy O, Marsili G, Sgarbanti M. (2011). The design of optimal therapeutic small interfering RNA molecules targeting diverse strains of influenza A virus. Bioinformatics. 15; 27(24):3364-70.

ElHefnawi M, Alaidi O, Mohamed N, Kamar M, El-Azab I, Zada S, Siam R. (2011). Identification of novel conserved functional motifs across most Influenza A viral strains. Virology Journal. 27;8:44.

Siam, R., Harada, R., Cadieux, C., Battat, R., Vadnais, C., Nepveu, A. (2009). Transcriptional activation of the Lats1 tumor suppressor gene in tumors of CUX1 transgenic mice. Mol Cancer. 5(8):60.

Spencer, W., Siam, R., Ouimet, M.C., Bastedo, D.P., Marczynski, G.T. (2009). CtrA, a global response regulator uses a distinct second category of weak DNA binding sites for cell cycle transcription control in Caulobacter crescentus. Journal of Bacteriology. 191(17):5458-70.

Gendoo, D.M.A., El-Hefnawi, M.M., Werner, M., Siam, R. (2008). Correlating novel variable and conserved motifs in the Hemagglutinin protein with significant biological functions. Virology Journal. 5:91-101.

Siam, R., Gómez, E.B., Forsburg, S.L. (2007). Schizosaccharomyces pombe Rad4/Cut5 protein modification and chromatin binding changes in DNA damage. DNA Cell Biology. 26(8):565-75.

Siam, R., Dolan, W.P., Forsburg, S.L. (2004). Choosing and using S. pombe plasmids. Methods. 33:189-98.

Siam, R., Brassinga, A.K.C., Marczynski G.T. (2003). A dual binding site for integration host factor and the response regulator CtrA inside the Caulobacter crescentus replication origin. Journal of Bacteriology. 185: 5563-5572.

Siam, R. and Marczynski, G.T. (2003). Glutamate at the phosphorylation site of response regulator CtrA provides essential activities without increasing DNA binding. Nucleic Acids Research. 31 (6): 1775-1779.

Brassinga, A.K.C., Siam, R., McSween, W., Winkler, H., Woods, W., Marczynski G.T. (2001) Conserved response regulator CtrA and IHF binding sites in the proteobacteria Caulobacter crescentus and Rickettsia prowazekii chromosomal replication origins. Journal of Bacteriology, 184: 5789-5799.

Brassinga, A.K.C., Siam, R., Marczynski G.T. (2001). Conserved gene cluster at replication origins of Caulobacter crescentus and Rickettsia prowazekii. Journal of Bacteriology, 183:1824-1829.

Siam, R. and Marczynski, G.T. (2000). Cell cycle regulator phosphorylation stimulates two distinct modes of binding at a chromosome replication origin. The EMBO Journal, 19:1138-1147.