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Items: 1 to 50 of 85

1.

Hidden cases of tRNA gene duplication and remolding in mitochondrial genomes of amphipods.

Romanova EV, Bukin YS, Mikhailov KV, Logacheva MD, Aleoshin VV, Sherbakov DY.

Mol Phylogenet Evol. 2019 Dec 15;144:106710. doi: 10.1016/j.ympev.2019.106710. [Epub ahead of print]

PMID:
31846708
2.

Organization Features of the Mitochondrial Genome of Sunflower (Helianthus annuus L.) with ANN2-Type Male-Sterile Cytoplasm.

Makarenko MS, Usatov AV, Tatarinova TV, Azarin KV, Logacheva MD, Gavrilova VA, Kornienko IV, Horn R.

Plants (Basel). 2019 Oct 23;8(11). pii: E439. doi: 10.3390/plants8110439.

3.

Complete plastome sequencing of Allium paradoxum reveals unusual rearrangements and the loss of the ndh genes as compared to Allium ursinum and other onions.

Omelchenko DO, Krinitsina AA, Belenikin MS, Konorov EA, Kuptsov SV, Logacheva MD, Speranskaya AS.

Gene. 2020 Feb 5;726:144154. doi: 10.1016/j.gene.2019.144154. Epub 2019 Oct 4.

PMID:
31589962
4.

Rhopalocnemis phalloides has one of the most reduced and mutated plastid genomes known.

Schelkunov MI, Nuraliev MS, Logacheva MD.

PeerJ. 2019 Sep 12;7:e7500. doi: 10.7717/peerj.7500. eCollection 2019.

5.

Genetics of Adaptation of the Ascomycetous Fungus Podospora anserina to Submerged Cultivation.

Kudryavtseva OA, Safina KR, Vakhrusheva OA, Logacheva MD, Penin AA, Neretina TV, Moskalenko VN, Glagoleva ES, Bazykin GA, Kondrashov AS.

Genome Biol Evol. 2019 Oct 1;11(10):2807-2817. doi: 10.1093/gbe/evz194.

6.

Clonal Composition of Human Multipotent Mesenchymal Stromal Cells: Application of Genetic Barcodes in Research.

Bigildeev AE, Pilunov AM, Sats NV, Surin VL, Shipounova IN, Petinati NA, Logacheva MD, Fedotova AV, Kasyanov AS, Artyukhov AS, Dashinimaev EB, Drize NJ.

Biochemistry (Mosc). 2019 Mar;84(3):250-262. doi: 10.1134/S0006297919030076.

PMID:
31221063
7.

Coding palindromes in mitochondrial genes of Nematomorpha.

Mikhailov KV, Efeykin BD, Panchin AY, Knorre DA, Logacheva MD, Penin AA, Muntyan MS, Nikitin MA, Popova OV, Zanegina ON, Vyssokikh MY, Spiridonov SE, Aleoshin VV, Panchin YV.

Nucleic Acids Res. 2019 Jul 26;47(13):6858-6870. doi: 10.1093/nar/gkz517.

8.

Dicyemida and Orthonectida: Two Stories of Body Plan Simplification.

Zverkov OA, Mikhailov KV, Isaev SV, Rusin LY, Popova OV, Logacheva MD, Penin AA, Moroz LL, Panchin YV, Lyubetsky VA, Aleoshin VV.

Front Genet. 2019 May 24;10:443. doi: 10.3389/fgene.2019.00443. eCollection 2019.

9.

Nuclear lamina integrity is required for proper spatial organization of chromatin in Drosophila.

Ulianov SV, Doronin SA, Khrameeva EE, Kos PI, Luzhin AV, Starikov SS, Galitsyna AA, Nenasheva VV, Ilyin AA, Flyamer IM, Mikhaleva EA, Logacheva MD, Gelfand MS, Chertovich AV, Gavrilov AA, Razin SV, Shevelyov YY.

Nat Commun. 2019 Mar 12;10(1):1176. doi: 10.1038/s41467-019-09185-y.

10.

Translatome and transcriptome analysis of TMA20 (MCT-1) and TMA64 (eIF2D) knockout yeast strains.

Makeeva DS, Lando AS, Anisimova A, Egorov AA, Logacheva MD, Penin AA, Andreev DE, Sinitcyn PG, Terenin IM, Shatsky IN, Kulakovskiy IV, Dmitriev SE.

Data Brief. 2019 Feb 2;23:103701. doi: 10.1016/j.dib.2019.103701. eCollection 2019 Apr.

11.

An update to database TraVA: organ-specific cold stress response in Arabidopsis thaliana.

Klepikova AV, Kulakovskiy IV, Kasianov AS, Logacheva MD, Penin AA.

BMC Plant Biol. 2019 Feb 15;19(Suppl 1):49. doi: 10.1186/s12870-019-1636-y.

12.

Characterization of the mitochondrial genome of the MAX1 type of cytoplasmic male-sterile sunflower.

Makarenko MS, Usatov AV, Tatarinova TV, Azarin KV, Logacheva MD, Gavrilova VA, Horn R.

BMC Plant Biol. 2019 Feb 15;19(Suppl 1):51. doi: 10.1186/s12870-019-1637-x.

13.

Improved Protocols of ITS1-Based Metabarcoding and Their Application in the Analysis of Plant-Containing Products.

Omelchenko DO, Speranskaya AS, Ayginin AA, Khafizov K, Krinitsina AA, Fedotova AV, Pozdyshev DV, Shtratnikova VY, Kupriyanova EV, Shipulin GA, Logacheva MD.

Genes (Basel). 2019 Feb 7;10(2). pii: E122. doi: 10.3390/genes10020122.

14.

Comparative Analysis of Developmental Transcriptome Maps of Arabidopsis thaliana and Solanum lycopersicum.

Penin AA, Klepikova AV, Kasianov AS, Gerasimov ES, Logacheva MD.

Genes (Basel). 2019 Jan 15;10(1). pii: E50. doi: 10.3390/genes10010050.

15.

Correction: Complete mitochondrial genome sequence of the "copper moss" Mielichhoferia elongata reveals independent nad7 gene functionality loss.

Goryunov DV, Goryunova SV, Kuznetsova OI, Logacheva MD, Milyutina IA, Fedorova AV, Ignatov MS, Troitsky AV.

PeerJ. 2018 Sep 18;6. pii: e4350/correction-1. doi: 10.7717/peerj.4350/correction-1. eCollection 2018.

16.

RNA-seq highlights parallel and contrasting patterns in the evolution of the nuclear genome of fully mycoheterotrophic plants.

Schelkunov MI, Penin AA, Logacheva MD.

BMC Genomics. 2018 Aug 9;19(1):602. doi: 10.1186/s12864-018-4968-3.

17.

Mitochondrial genomes organization in alloplasmic lines of sunflower (Helianthus annuus L.) with various types of cytoplasmic male sterility.

Makarenko MS, Kornienko IV, Azarin KV, Usatov AV, Logacheva MD, Markin NV, Gavrilova VA.

PeerJ. 2018 Jul 23;6:e5266. doi: 10.7717/peerj.5266. eCollection 2018.

18.

Colonizing the Wild West: Low Diversity of Complete Mitochondrial Genomes in Western North Pacific Killer Whales Suggests a Founder Effect.

Filatova OA, Borisova EA, Meschersky IG, Logacheva MD, Kuzkina NV, Shpak OV, Morin PA, Hoyt E.

J Hered. 2018 Oct 31;109(7):735-743. doi: 10.1093/jhered/esy037.

PMID:
30053000
19.

Comparative Genomic Analysis of Holospora spp., Intranuclear Symbionts of Paramecia.

Garushyants SK, Beliavskaia AY, Malko DB, Logacheva MD, Rautian MS, Gelfand MS.

Front Microbiol. 2018 Apr 16;9:738. doi: 10.3389/fmicb.2018.00738. eCollection 2018.

20.

Metagenomics of Bolidophyceae in Plankton and Ice of the White Sea.

Belevich TA, Ilyash LV, Milyutina IA, Logacheva MD, Troitsky AV.

Biochemistry (Mosc). 2017 Dec;82(12):1538-1548. doi: 10.1134/S0006297917120136.

PMID:
29486704
21.

FACS Isolation of Viable Cells in Different Cell Cycle Stages from Asynchronous Culture for RNA Sequencing.

Potashnikova DM, Golyshev SA, Penin AA, Logacheva MD, Klepikova AV, Zharikova AA, Mironov AA, Sheval EV, Vorobjev IA.

Methods Mol Biol. 2018;1745:315-335. doi: 10.1007/978-1-4939-7680-5_18.

PMID:
29476477
22.

Complete mitochondrial genome sequence of the "copper moss" Mielichhoferia elongata reveals independent nad7 gene functionality loss.

Goryunov DV, Goryunova SV, Kuznetsova OI, Logacheva MD, Milyutina IA, Fedorova AV, Ignatov MS, Troitsky AV.

PeerJ. 2018 Feb 2;6:e4350. doi: 10.7717/peerj.4350. eCollection 2018. Erratum in: PeerJ. 2018 Sep 18;6:. Goruynov, Denis V [corrected to Goryunov, Denis V].

23.

Jasmonate-responsive MYB factors spatially repress rutin biosynthesis in Fagopyrum tataricum.

Zhang K, Logacheva MD, Meng Y, Hu J, Wan D, Li L, Janovská D, Wang Z, Georgiev MI, Yu Z, Yang F, Yan M, Zhou M.

J Exp Bot. 2018 Apr 9;69(8):1955-1966. doi: 10.1093/jxb/ery032.

24.

The systematic position of Dryopteris blanfordii subsp. nigrosquamosa (Ching) Fraser-Jenkins within the genus Dryopteris Adans.

Krinitsina AA, Belenikin MS, Churikova OA, Kuptsov SV, Antipin MI, Logacheva MD, Speranskaya AS.

PhytoKeys. 2017 Nov 15;(90):89-112. doi: 10.3897/phytokeys.90.14745. eCollection 2017.

25.

Comparative analysis of inverted repeats of polypod fern (Polypodiales) plastomes reveals two hypervariable regions.

Logacheva MD, Krinitsina AA, Belenikin MS, Khafizov K, Konorov EA, Kuptsov SV, Speranskaya AS.

BMC Plant Biol. 2017 Dec 28;17(Suppl 2):255. doi: 10.1186/s12870-017-1195-z.

26.

The Mitochondrial Genome of the Moss Brachythecium rivulare (Hypnales, Brachytheciaceae).

Goryunov DV, Logacheva MD, Ignatov MS, Milyutina IA, Fedorova AV, Troitsky AV.

Biochemistry (Mosc). 2017 Nov;82(11):1373-1379. doi: 10.1134/S0006297917110153.

27.

Trypanosomatid mitochondrial RNA editing: dramatically complex transcript repertoires revealed with a dedicated mapping tool.

Gerasimov ES, Gasparyan AA, Kaurov I, Tichý B, Logacheva MD, Kolesnikov AA, Lukeš J, Yurchenko V, Zimmer SL, Flegontov P.

Nucleic Acids Res. 2018 Jan 25;46(2):765-781. doi: 10.1093/nar/gkx1202.

28.

Photosynthetic Picoeukaryotes in the Land-Fast Ice of the White Sea, Russia.

Belevich TA, Ilyash LV, Milyutina IA, Logacheva MD, Goryunov DV, Troitsky AV.

Microb Ecol. 2018 Apr;75(3):582-597. doi: 10.1007/s00248-017-1076-x. Epub 2017 Sep 24.

PMID:
28942559
29.

FtSAD2 and FtJAZ1 regulate activity of the FtMYB11 transcription repressor of the phenylpropanoid pathway in Fagopyrum tataricum.

Zhou M, Sun Z, Ding M, Logacheva MD, Kreft I, Wang D, Yan M, Shao J, Tang Y, Wu Y, Zhu X.

New Phytol. 2017 Nov;216(3):814-828. doi: 10.1111/nph.14692. Epub 2017 Jul 19.

30.

Minicircle Kinetoplast Genome of Insect Trypanosomatid Leptomonas pyrrhocoris.

Gerasimov ES, Gasparyan AA, Litus IA, Logacheva MD, Kolesnikov AA.

Biochemistry (Mosc). 2017 May;82(5):572-578. doi: 10.1134/S0006297917050054.

PMID:
28601067
31.

High-quality genome assembly of Capsella bursa-pastoris reveals asymmetry of regulatory elements at early stages of polyploid genome evolution.

Kasianov AS, Klepikova AV, Kulakovskiy IV, Gerasimov ES, Fedotova AV, Besedina EG, Kondrashov AS, Logacheva MD, Penin AA.

Plant J. 2017 Jul;91(2):278-291. doi: 10.1111/tpj.13563. Epub 2017 Jun 12.

32.

Evolution of mitochondrial genomes in Baikalian amphipods.

Romanova EV, Aleoshin VV, Kamaltynov RM, Mikhailov KV, Logacheva MD, Sirotinina EA, Gornov AY, Anikin AS, Sherbakov DY.

BMC Genomics. 2016 Dec 28;17(Suppl 14):1016. doi: 10.1186/s12864-016-3357-z.

33.

Transcriptome-based phylogeny of endemic Lake Baikal amphipod species flock: fast speciation accompanied by frequent episodes of positive selection.

Naumenko SA, Logacheva MD, Popova NV, Klepikova AV, Penin AA, Bazykin GA, Etingova AE, Mugue NS, Kondrashov AS, Yampolsky LY.

Mol Ecol. 2017 Jan;26(2):536-553. doi: 10.1111/mec.13927. Epub 2017 Jan 2.

34.

Interplay between RNA interference and heat shock response systems in Drosophila melanogaster.

Funikov SY, Ryazansky SS, Kanapin AA, Logacheva MD, Penin AA, Snezhkina AV, Shilova VY, Garbuz DG, Evgen'ev MB, Zatsepina OG.

Open Biol. 2016 Oct;6(10). pii: 160224.

35.

Mitochondrial Genomes of Kinorhyncha: trnM Duplication and New Gene Orders within Animals.

Popova OV, Mikhailov KV, Nikitin MA, Logacheva MD, Penin AA, Muntyan MS, Kedrova OS, Petrov NB, Panchin YV, Aleoshin VV.

PLoS One. 2016 Oct 18;11(10):e0165072. doi: 10.1371/journal.pone.0165072. eCollection 2016.

36.

Plastid Genome of Seseli montanum: Complete Sequence and Comparison with Plastomes of Other Members of the Apiaceae Family.

Samigullin TH, Logacheva MD, Terenteva EI, Degtjareva GV, Vallejo-Roman CM.

Biochemistry (Mosc). 2016 Sep;81(9):981-5. doi: 10.1134/S0006297916090078.

37.

A high resolution map of the Arabidopsis thaliana developmental transcriptome based on RNA-seq profiling.

Klepikova AV, Kasianov AS, Gerasimov ES, Logacheva MD, Penin AA.

Plant J. 2016 Dec;88(6):1058-1070. doi: 10.1111/tpj.13312. Epub 2016 Nov 19.

38.

High-quality full-length immunoglobulin profiling with unique molecular barcoding.

Turchaninova MA, Davydov A, Britanova OV, Shugay M, Bikos V, Egorov ES, Kirgizova VI, Merzlyak EM, Staroverov DB, Bolotin DA, Mamedov IZ, Izraelson M, Logacheva MD, Kladova O, Plevova K, Pospisilova S, Chudakov DM.

Nat Protoc. 2016 Sep;11(9):1599-616. doi: 10.1038/nprot.2016.093. Epub 2016 Aug 4.

PMID:
27490633
39.

Comparative analysis of plastid genomes of non-photosynthetic Ericaceae and their photosynthetic relatives.

Logacheva MD, Schelkunov MI, Shtratnikova VY, Matveeva MV, Penin AA.

Sci Rep. 2016 Jul 25;6:30042. doi: 10.1038/srep30042.

40.

Biliary Microbiota, Gallstone Disease and Infection with Opisthorchis felineus.

Saltykova IV, Petrov VA, Logacheva MD, Ivanova PG, Merzlikin NV, Sazonov AE, Ogorodova LM, Brindley PJ.

PLoS Negl Trop Dis. 2016 Jul 22;10(7):e0004809. doi: 10.1371/journal.pntd.0004809. eCollection 2016 Jul.

41.

The Genome of Intoshia linei Affirms Orthonectids as Highly Simplified Spiralians.

Mikhailov KV, Slyusarev GS, Nikitin MA, Logacheva MD, Penin AA, Aleoshin VV, Panchin YV.

Curr Biol. 2016 Jul 11;26(13):1768-1774. doi: 10.1016/j.cub.2016.05.007. Epub 2016 Jun 30.

42.

Highly efficient primed spacer acquisition from targets destroyed by the Escherichia coli type I-E CRISPR-Cas interfering complex.

Semenova E, Savitskaya E, Musharova O, Strotskaya A, Vorontsova D, Datsenko KA, Logacheva MD, Severinov K.

Proc Natl Acad Sci U S A. 2016 Jul 5;113(27):7626-31. doi: 10.1073/pnas.1602639113. Epub 2016 Jun 20.

43.

Local fitness landscape of the green fluorescent protein.

Sarkisyan KS, Bolotin DA, Meer MV, Usmanova DR, Mishin AS, Sharonov GV, Ivankov DN, Bozhanova NG, Baranov MS, Soylemez O, Bogatyreva NS, Vlasov PK, Egorov ES, Logacheva MD, Kondrashov AS, Chudakov DM, Putintseva EV, Mamedov IZ, Tawfik DS, Lukyanov KA, Kondrashov FA.

Nature. 2016 May 19;533(7603):397-401. doi: 10.1038/nature17995. Epub 2016 May 11.

44.

Metagenomic Analysis of Bacterial Communities of Antarctic Surface Snow.

Lopatina A, Medvedeva S, Shmakov S, Logacheva MD, Krylenkov V, Severinov K.

Front Microbiol. 2016 Mar 31;7:398. doi: 10.3389/fmicb.2016.00398. eCollection 2016.

45.

Genome of Leptomonas pyrrhocoris: a high-quality reference for monoxenous trypanosomatids and new insights into evolution of Leishmania.

Flegontov P, Butenko A, Firsov S, Kraeva N, Eliáš M, Field MC, Filatov D, Flegontova O, Gerasimov ES, Hlaváčová J, Ishemgulova A, Jackson AP, Kelly S, Kostygov AY, Logacheva MD, Maslov DA, Opperdoes FR, O'Reilly A, Sádlová J, Ševčíková T, Venkatesh D, Vlček Č, Volf P, Votýpka J, Záhonová K, Yurchenko V, Lukeš J.

Sci Rep. 2016 Mar 29;6:23704. doi: 10.1038/srep23704.

46.

Complete Plastid Genome of the Recent Holoparasite Lathraea squamaria Reveals Earliest Stages of Plastome Reduction in Orobanchaceae.

Samigullin TH, Logacheva MD, Penin AA, Vallejo-Roman CM.

PLoS One. 2016 Mar 2;11(3):e0150718. doi: 10.1371/journal.pone.0150718. eCollection 2016.

47.

Genomic study of the Ket: a Paleo-Eskimo-related ethnic group with significant ancient North Eurasian ancestry.

Flegontov P, Changmai P, Zidkova A, Logacheva MD, Altınışık NE, Flegontova O, Gelfand MS, Gerasimov ES, Khrameeva EE, Konovalova OP, Neretina T, Nikolsky YV, Starostin G, Stepanova VV, Travinsky IV, Tříska M, Tříska P, Tatarinova TV.

Sci Rep. 2016 Feb 11;6:20768. doi: 10.1038/srep20768.

48.

Gene Loss and Error-Prone RNA Editing in the Mitochondrion of Perkinsela, an Endosymbiotic Kinetoplastid.

David V, Flegontov P, Gerasimov E, Tanifuji G, Hashimi H, Logacheva MD, Maruyama S, Onodera NT, Gray MW, Archibald JM, Lukeš J.

mBio. 2015 Dec 1;6(6):e01498-15. doi: 10.1128/mBio.01498-15.

49.

Metagenomic Analyses of White Sea Picoalgae: First Data.

Belevich TA, Ilyash LV, Milyutina IA, Logacheva MD, Goryunov DV, Troitsky AV.

Biochemistry (Mosc). 2015 Nov;80(11):1514-21. doi: 10.1134/S0006297915110140.

PMID:
26615444
50.

[Study of Chloroplast DNA Polymorphism in the Sunflower (Helianthus L.)].

Markina NV, Usatov AV, Logacheva MD, Azarin KV, Gorbachenko CF, Kornienko IV, Gavrilova VA, Tihobaeva VE.

Genetika. 2015 Aug;51(8):873-80. Russian.

PMID:
26601486

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