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Items: 1 to 50 of 77

1.

Optimization of the standard genetic code in terms of two mutation types: Point mutations and frameshifts.

Wnętrzak M, Błażej P, Mackiewicz P.

Biosystems. 2019 Jul;181:44-50. doi: 10.1016/j.biosystems.2019.04.012. Epub 2019 Apr 28.

PMID:
31042561
2.

The influence of different types of translational inaccuracies on the genetic code structure.

BłaŻej P, Wnetrzak M, Mackiewicz D, Mackiewicz P.

BMC Bioinformatics. 2019 Mar 6;20(1):114. doi: 10.1186/s12859-019-2661-4.

3.

Many alternative and theoretical genetic codes are more robust to amino acid replacements than the standard genetic code.

Błażej P, Wnętrzak M, Mackiewicz D, Gagat P, Mackiewicz P.

J Theor Biol. 2019 Mar 7;464:21-32. doi: 10.1016/j.jtbi.2018.12.030. Epub 2018 Dec 21.

PMID:
30579955
4.

The optimality of the standard genetic code assessed by an eight-objective evolutionary algorithm.

Wnętrzak M, Błażej P, Mackiewicz D, Mackiewicz P.

BMC Evol Biol. 2018 Dec 13;18(1):192. doi: 10.1186/s12862-018-1304-0.

5.

Prediction of Signal Peptides in Proteins from Malaria Parasites.

Burdukiewicz M, Sobczyk P, Chilimoniuk J, Gagat P, Mackiewicz P.

Int J Mol Sci. 2018 Nov 22;19(12). pii: E3709. doi: 10.3390/ijms19123709.

6.

New Insight into Parrots' Mitogenomes Indicates That Their Ancestor Contained a Duplicated Region.

Urantówka AD, Kroczak A, Silva T, Padrón RZ, Gallardo NF, Blanch J, Blanch B, Mackiewicz P.

Mol Biol Evol. 2018 Dec 1;35(12):2989-3009. doi: 10.1093/molbev/msy189.

7.

Correction: Optimization of the standard genetic code according to three codon positions using an evolutionary algorithm.

Błażej P, Wnętrzak M, Mackiewicz D, Mackiewicz P.

PLoS One. 2018 Oct 4;13(10):e0205450. doi: 10.1371/journal.pone.0205450. eCollection 2018.

8.

Tannerella forsythia Tfo belongs to Porphyromonas gingivalis HmuY-like family of proteins but differs in heme-binding properties.

Bielecki M, Antonyuk S, Strange RW, Smalley JW, Mackiewicz P, Śmiga M, Stępień P, Olczak M, Olczak T.

Biosci Rep. 2018 Oct 22;38(5). pii: BSR20181325. doi: 10.1042/BSR20181325. Print 2018 Oct 31.

9.

Optimization of the standard genetic code according to three codon positions using an evolutionary algorithm.

Błażej P, Wnętrzak M, Mackiewicz D, Mackiewicz P.

PLoS One. 2018 Aug 9;13(8):e0201715. doi: 10.1371/journal.pone.0201715. eCollection 2018. Erratum in: PLoS One. 2018 Oct 4;13(10):e0205450.

10.

PhyMet2 : a database and toolkit for phylogenetic and metabolic analyses of methanogens.

Michał B, Gagat P, Jabłoński S, Chilimoniuk J, Gaworski M, Mackiewicz P, Marcin Ł.

Environ Microbiol Rep. 2018 Jun;10(3):378-382. doi: 10.1111/1758-2229.12648. Erratum in: Environ Microbiol Rep. 2018 Oct;10(5):605.

PMID:
29624889
11.

Virulence factors of Moraxella catarrhalis outer membrane vesicles are major targets for cross-reactive antibodies and have adapted during evolution.

Augustyniak D, Seredyński R, McClean S, Roszkowiak J, Roszniowski B, Smith DL, Drulis-Kawa Z, Mackiewicz P.

Sci Rep. 2018 Mar 21;8(1):4955. doi: 10.1038/s41598-018-23029-7.

12.

The influence of habitat preferences on shell morphology in ecophenotypes of Trochulus hispidus complex.

Proćków M, Proćków J, Błażej P, Mackiewicz P.

Sci Total Environ. 2018 Jul 15;630:1036-1043. doi: 10.1016/j.scitotenv.2018.02.311. Epub 2018 Mar 7.

PMID:
29554725
13.

Phenotypic plasticity can explain evolution of sympatric polymorphism in the hairy snail Trochulus hispidus (Linnaeus, 1758).

Pro Ków M, Kuźnik-Kowalska E, Mackiewicz P.

Curr Zool. 2017 Aug;63(4):389-402. doi: 10.1093/cz/zow082. Epub 2016 Jul 24.

14.

Amyloidogenic motifs revealed by n-gram analysis.

Burdukiewicz M, Sobczyk P, Rödiger S, Duda-Madej A, Mackiewicz P, Kotulska M.

Sci Rep. 2017 Oct 11;7(1):12961. doi: 10.1038/s41598-017-13210-9.

15.

Correction: A new parrot taxon from the Yucatán Peninsula, Mexico-its position within genus Amazona based on morphology and molecular phylogeny.

Silva T, Guzmán A, Urantówka AD, Mackiewicz P.

PeerJ. 2017 Sep 12;5. pii: e3475/correction-1. doi: 10.7717/peerj.3475/correction-1. eCollection 2017.

17.

A new parrot taxon from the Yucatán Peninsula, Mexico-its position within genus Amazona based on morphology and molecular phylogeny.

Silva T, Guzmán A, Urantówka AD, Mackiewicz P.

PeerJ. 2017 Jun 27;5:e3475. doi: 10.7717/peerj.3475. eCollection 2017. Erratum in: PeerJ. 2017 Sep 12;5:.

18.

Evolutionary history and phylogeographic relationships of shrews from Sorex araneus group.

Mackiewicz P, Moska M, Wierzbicki H, Gagat P, Mackiewicz D.

PLoS One. 2017 Jun 26;12(6):e0179760. doi: 10.1371/journal.pone.0179760. eCollection 2017.

19.

Optimization of amino acid replacement costs by mutational pressure in bacterial genomes.

Błażej P, Mackiewicz D, Grabińska M, Wnętrzak M, Mackiewicz P.

Sci Rep. 2017 Apr 21;7(1):1061. doi: 10.1038/s41598-017-01130-7.

20.

Representations of Search Spaces in the Problem of Mutational Pressure Optimization According to Protein-Coding Sequences.

Błażej P, Wnętrzak M, Grabińska M, Mackiewicz P.

J Comput Biol. 2017 Nov;24(11):1089-1098. doi: 10.1089/cmb.2017.0017. Epub 2017 Apr 17.

PMID:
28414521
21.

Electromagnetic Field Seems to Not Influence Transcription via CTCT Motif in Three Plant Promoters.

Sztafrowski D, Aksamit-Stachurska A, Kostyn K, Mackiewicz P, Łukaszewicz M.

Front Plant Sci. 2017 Mar 7;8:178. doi: 10.3389/fpls.2017.00178. eCollection 2017.

22.

The Impact of Selection at the Amino Acid Level on the Usage of Synonymous Codons.

Błażej P, Mackiewicz D, Wnętrzak M, Mackiewicz P.

G3 (Bethesda). 2017 Mar 10;7(3):967-981. doi: 10.1534/g3.116.038125.

23.

Ongoing Speciation and Gene Flow between Taxonomically Challenging Trochulus Species Complex (Gastropoda: Hygromiidae).

Proćków M, Strzała T, Kuźnik-Kowalska E, Proćków J, Mackiewicz P.

PLoS One. 2017 Jan 20;12(1):e0170460. doi: 10.1371/journal.pone.0170460. eCollection 2017.

24.

Cymbomonas tetramitiformis - a peculiar prasinophyte with a taste for bacteria sheds light on plastid evolution.

Gagat P, Mackiewicz P.

Symbiosis. 2017;71(1):1-7. doi: 10.1007/s13199-016-0464-1. Epub 2016 Nov 10. Review.

25.

The role of crossover operator in evolutionary-based approach to the problem of genetic code optimization.

Błażej P, Wnȩtrzak M, Mackiewicz P.

Biosystems. 2016 Dec;150:61-72. doi: 10.1016/j.biosystems.2016.08.008. Epub 2016 Aug 20.

PMID:
27555085
26.

Retreat and extinction of the Late Pleistocene cave bear (Ursus spelaeus sensu lato).

Baca M, Popović D, Stefaniak K, Marciszak A, Urbanowski M, Nadachowski A, Mackiewicz P.

Naturwissenschaften. 2016 Dec;103(11-12):92. Epub 2016 Oct 11.

27.

Methods for comparing multiple digital PCR experiments.

Burdukiewicz M, Rödiger S, Sobczyk P, Menschikowski M, Schierack P, Mackiewicz P.

Biomol Detect Quantif. 2016 Aug 10;9:14-9. doi: 10.1016/j.bdq.2016.06.004. eCollection 2016 Sep.

28.

ParA and ParB coordinate chromosome segregation with cell elongation and division during Streptomyces sporulation.

Donczew M, Mackiewicz P, Wróbel A, Flärdh K, Zakrzewska-Czerwińska J, Jakimowicz D.

Open Biol. 2016 Apr;6(4):150263. doi: 10.1098/rsob.150263. Epub 2016 Apr 27.

29.

Complete mitochondrial genome of Blue-and-yellow Macaw (Ara ararauna): the species morphologically similar to Blue-throated Macaw (Ara glaucogularis).

Urantowka AD, Mackiewicz P, Strzała T.

Mitochondrial DNA A DNA Mapp Seq Anal. 2017 May;28(3):307-308. doi: 10.3109/19401736.2015.1118090. Epub 2015 Dec 29.

PMID:
26714066
30.

Complete mitochondrial genome of Blue-winged Macaw (Primolius maracana).

Urantowka AD, Mackiewicz P.

Mitochondrial DNA A DNA Mapp Seq Anal. 2017 Mar;28(2):275-276. doi: 10.3109/19401736.2015.1118077. Epub 2015 Dec 29.

PMID:
26713710
31.

Optimization of Mutation Pressure in Relation to Properties of Protein-Coding Sequences in Bacterial Genomes.

Błażej P, Miasojedow B, Grabińska M, Mackiewicz P.

PLoS One. 2015 Jun 29;10(6):e0130411. doi: 10.1371/journal.pone.0130411. eCollection 2015.

32.

Complete mitochondrial genome of Red-throated Conure (Psittacara rubritorquis): its comparison with mitogenome of Socorro Conure (Psittacara brevipes).

Urantowka AD, Mackiewicz P, Kroczak A, Strzała T.

Mitochondrial DNA A DNA Mapp Seq Anal. 2016 Sep;27(5):3354-5. doi: 10.3109/19401736.2015.1018218. Epub 2015 Feb 23.

PMID:
25703849
33.

Complete mitochondrial genome of Mitred Conure (Psittacara mitratus): its comparison with mitogenome of Socorro Conure (Psittacara brevipes).

Urantowka AD, Mackiewicz P, Strzała T.

Mitochondrial DNA A DNA Mapp Seq Anal. 2016 Sep;27(5):3363-4. doi: 10.3109/19401736.2015.1018222. Epub 2015 Feb 23.

PMID:
25703848
34.

Fur homolog regulates Porphyromonas gingivalis virulence under low-iron/heme conditions through a complex regulatory network.

Ciuraszkiewicz J, Smiga M, Mackiewicz P, Gmiterek A, Bielecki M, Olczak M, Olczak T.

Mol Oral Microbiol. 2014 Dec;29(6):333-53. doi: 10.1111/omi.12077. Epub 2014 Sep 27.

PMID:
25131619
35.

Phylogeny of Amazona barbadensis and the Yellow-headed Amazon complex (Aves: Psittacidae): a new look at South American parrot evolution.

Urantówka AD, Mackiewicz P, Strzała T.

PLoS One. 2014 May 13;9(5):e97228. doi: 10.1371/journal.pone.0097228. eCollection 2014.

36.

The case of horizontal gene transfer from bacteria to the peculiar dinoflagellate plastid genome.

Mackiewicz P, Bodył A, Moszczyński K.

Mob Genet Elements. 2013 Jul 1;3(4):e25845. Epub 2013 Aug 2.

37.
38.

The unique hmuY gene sequence as a specific marker of Porphyromonas gingivalis.

Gmiterek A, Wójtowicz H, Mackiewicz P, Radwan-Oczko M, Kantorowicz M, Chomyszyn-Gajewska M, Frąszczak M, Bielecki M, Olczak M, Olczak T.

PLoS One. 2013 Jul 2;8(7):e67719. doi: 10.1371/journal.pone.0067719. Print 2013.

39.
40.

Direct and inverted repeats elicit genetic instability by both exploiting and eluding DNA double-strand break repair systems in mycobacteria.

Wojcik EA, Brzostek A, Bacolla A, Mackiewicz P, Vasquez KM, Korycka-Machala M, Jaworski A, Dziadek J.

PLoS One. 2012;7(12):e51064. doi: 10.1371/journal.pone.0051064. Epub 2012 Dec 10.

41.

Organelle evolution: Paulinella breaks a paradigm.

Bodył A, Mackiewicz P, Gagat P.

Curr Biol. 2012 May 8;22(9):R304-6. doi: 10.1016/j.cub.2012.03.020. Epub 2012 May 7.

42.

Innate immune properties of selected human neuropeptides against Moraxella catarrhalis and nontypeable Haemophilus influenzae.

Augustyniak D, Jankowski A, Mackiewicz P, Skowyra A, Gutowicz J, Drulis-Kawa Z.

BMC Immunol. 2012 May 2;13:24.

43.

Possible import routes of proteins into the cyanobacterial endosymbionts/plastids of Paulinella chromatophora.

Mackiewicz P, Bodył A, Gagat P.

Theory Biosci. 2012 May;131(1):1-18. doi: 10.1007/s12064-011-0147-7. Epub 2011 Dec 31.

44.

Evidence for horizontal gene transfer from bacteroidetes bacteria to dinoflagellate minicircles.

Moszczynski K, Mackiewicz P, Bodyl A.

Mol Biol Evol. 2012 Mar;29(3):887-92. doi: 10.1093/molbev/msr276. Epub 2011 Nov 10.

PMID:
22075114
45.

DiaA/HobA and DnaA: a pair of proteins co-evolved to cooperate during bacterial orisome assembly.

Zawilak-Pawlik A, Donczew R, Szafrański S, Mackiewicz P, Terradot L, Zakrzewska-Czerwińska J.

J Mol Biol. 2011 Apr 29;408(2):238-51. doi: 10.1016/j.jmb.2011.02.045. Epub 2011 Feb 25.

PMID:
21354425
46.

Isolation and characterisation of KP34--a novel φKMV-like bacteriophage for Klebsiella pneumoniae.

Drulis-Kawa Z, Mackiewicz P, Kęsik-Szeloch A, Maciaszczyk-Dziubinska E, Weber-Dąbrowska B, Dorotkiewicz-Jach A, Augustyniak D, Majkowska-Skrobek G, Bocer T, Empel J, Kropinski AM.

Appl Microbiol Biotechnol. 2011 May;90(4):1333-45. doi: 10.1007/s00253-011-3149-y. Epub 2011 Feb 16.

47.

Comparative genomic studies suggest that the cyanobacterial endosymbionts of the amoeba Paulinella chromatophora possess an import apparatus for nuclear-encoded proteins.

Bodył A, Mackiewicz P, Stiller JW.

Plant Biol (Stuttg). 2010 Jul 1;12(4):639-49. doi: 10.1111/j.1438-8677.2009.00264.x.

PMID:
20636907
48.

Did trypanosomatid parasites contain a eukaryotic alga-derived plastid in their evolutionary past?

Bodył A, Mackiewicz P, Milanowski R.

J Parasitol. 2010 Apr;96(2):465-75. doi: 10.1645/GE-1810.1.

PMID:
20540605
49.

Early steps in plastid evolution: current ideas and controversies.

Bodył A, Mackiewicz P, Stiller JW.

Bioessays. 2009 Nov;31(11):1219-32. doi: 10.1002/bies.200900073.

PMID:
19847819
50.

Phylogeny and evolution of Rab7 and Rab9 proteins.

Mackiewicz P, Wyroba E.

BMC Evol Biol. 2009 May 14;9:101. doi: 10.1186/1471-2148-9-101.

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