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Genome analysis of 'Candidatus Ancillula trichonymphae', first representative of a deep-branching clade of Bifidobacteriales, strengthens evidence for convergent evolution in flagellate endosymbionts.

Environmental microbiology reports

Strassert JFH, Mikaelyan A, Woyke T, Brune A.
PMID: 27518440
Environ Microbiol Rep. 2016 Oct;8(5):865-873. doi: 10.1111/1758-2229.12451. Epub 2016 Sep 07.

The flagellate protists in the hindgut of lower termites play an essential role in the digestion of lignocellulose. Most flagellate species are associated with host-specific symbionts from various bacterial lineages, which typically lack cultured representatives. In this study, we...

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Strassert JFH, Mikaelyan A, Woyke T, et al. Genome analysis of 'Candidatus Ancillula trichonymphae', first representative of a deep-branching clade of Bifidobacteriales, strengthens evidence for convergent evolution in flagellate endosymbionts. Environ Microbiol Rep. 2016;8(5):865-873doi: 10.1111/1758-2229.12451.
Strassert, J. F. H., Mikaelyan, A., Woyke, T., & Brune, A. (2016). Genome analysis of 'Candidatus Ancillula trichonymphae', first representative of a deep-branching clade of Bifidobacteriales, strengthens evidence for convergent evolution in flagellate endosymbionts. Environmental microbiology reports, 8(5), 865-873. https://doi.org/10.1111/1758-2229.12451
Strassert, Jürgen F H, et al. "Genome analysis of 'Candidatus Ancillula trichonymphae', first representative of a deep-branching clade of Bifidobacteriales, strengthens evidence for convergent evolution in flagellate endosymbionts." Environmental microbiology reports vol. 8,5 (2016): 865-873. doi: https://doi.org/10.1111/1758-2229.12451
Strassert JFH, Mikaelyan A, Woyke T, Brune A. Genome analysis of 'Candidatus Ancillula trichonymphae', first representative of a deep-branching clade of Bifidobacteriales, strengthens evidence for convergent evolution in flagellate endosymbionts. Environ Microbiol Rep. 2016 Oct;8(5):865-873. doi: 10.1111/1758-2229.12451. Epub 2016 Sep 07. PMID: 27518440.
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Structural Similarities between Spinach Chloroplast and Cytosolic Class I Fructose 1,6-Bisphosphate Aldolases : Immunochemical and Amino-Terminal Amino Acid Sequence Analysis.

Plant physiology

Marsh JJ, Wilson KJ, Lebherz HG.
PMID: 16667191
Plant Physiol. 1989 Dec;91(4):1393-401. doi: 10.1104/pp.91.4.1393.

Immunochemical studies using polyclonal antisera prepared individually against highly purified cytosolic and chloroplast spinach leaf (Spinacia oleracea) fructose bisphosphate aldolases showed significant cross reaction between both forms of spinach aldolase and their heterologous antisera. The individual cross reactions were...

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Marsh JJ, Wilson KJ, Lebherz HG. Structural Similarities between Spinach Chloroplast and Cytosolic Class I Fructose 1,6-Bisphosphate Aldolases : Immunochemical and Amino-Terminal Amino Acid Sequence Analysis. Plant Physiol. 1989;91(4):1393-401doi: 10.1104/pp.91.4.1393.
Marsh, J. J., Wilson, K. J., & Lebherz, H. G. (1989). Structural Similarities between Spinach Chloroplast and Cytosolic Class I Fructose 1,6-Bisphosphate Aldolases : Immunochemical and Amino-Terminal Amino Acid Sequence Analysis. Plant physiology, 91(4), 1393-401. https://doi.org/10.1104/pp.91.4.1393
Marsh, J J, et al. "Structural Similarities between Spinach Chloroplast and Cytosolic Class I Fructose 1,6-Bisphosphate Aldolases : Immunochemical and Amino-Terminal Amino Acid Sequence Analysis." Plant physiology vol. 91,4 (1989): 1393-401. doi: https://doi.org/10.1104/pp.91.4.1393
Marsh JJ, Wilson KJ, Lebherz HG. Structural Similarities between Spinach Chloroplast and Cytosolic Class I Fructose 1,6-Bisphosphate Aldolases : Immunochemical and Amino-Terminal Amino Acid Sequence Analysis. Plant Physiol. 1989 Dec;91(4):1393-401. doi: 10.1104/pp.91.4.1393. PMID: 16667191; PMCID: PMC1062196.
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Comparative proteomic analysis of early salt stress-responsive proteins in roots of SnRK2 transgenic rice.

Proteome science

Nam MH, Huh SM, Kim KM, Park WJ, Seo JB, Cho K, Kim DY, Kim BG, Yoon IS.
PMID: 22462395
Proteome Sci. 2012 Mar 31;10:25. doi: 10.1186/1477-5956-10-25.

BACKGROUND: The rice roots are highly salt-sensitive organ and primary root growth is rapidly suppressed by salt stress. Sucrose nonfermenting 1-related protein kinase2 (SnRK2) family is one of the key regulator of hyper-osmotic stress signalling in various plant cells....

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Nam MH, Huh SM, Kim KM, et al. Comparative proteomic analysis of early salt stress-responsive proteins in roots of SnRK2 transgenic rice. Proteome Sci. 2012;10:25doi: 10.1186/1477-5956-10-25.
Nam, M. H., Huh, S. M., Kim, K. M., Park, W. J., Seo, J. B., Cho, K., Kim, D. Y., Kim, B. G., & Yoon, I. S. (2012). Comparative proteomic analysis of early salt stress-responsive proteins in roots of SnRK2 transgenic rice. Proteome science, 1025. https://doi.org/10.1186/1477-5956-10-25
Nam, Myung Hee, et al. "Comparative proteomic analysis of early salt stress-responsive proteins in roots of SnRK2 transgenic rice." Proteome science vol. 10 (2012): 25. doi: https://doi.org/10.1186/1477-5956-10-25
Nam MH, Huh SM, Kim KM, Park WJ, Seo JB, Cho K, Kim DY, Kim BG, Yoon IS. Comparative proteomic analysis of early salt stress-responsive proteins in roots of SnRK2 transgenic rice. Proteome Sci. 2012 Mar 31;10:25. doi: 10.1186/1477-5956-10-25. PMID: 22462395; PMCID: PMC3364906.
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Proteomic analysis of the effect of fuzheng huayu recipe on fibrotic liver in rats.

Evidence-based complementary and alternative medicine : eCAM

Xie H, Tao Y, Lv J, Liu P, Liu C.
PMID: 23431353
Evid Based Complement Alternat Med. 2013;2013:972863. doi: 10.1155/2013/972863. Epub 2013 Jan 29.

Hepatic fibrosis is a common pathological process of chronic liver diseases and would lead to cirrhosis, and Fuzheng Huayu (FZHY) is an effective Chinese herbal product against liver fibrosis. This study observes FZHY influence on proteome of fibrotic liver...

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Xie H, Tao Y, Lv J, et al. Proteomic analysis of the effect of fuzheng huayu recipe on fibrotic liver in rats. Evid Based Complement Alternat Med. 2013;2013:972863doi: 10.1155/2013/972863.
Xie, H., Tao, Y., Lv, J., Liu, P., & Liu, C. (2013). Proteomic analysis of the effect of fuzheng huayu recipe on fibrotic liver in rats. Evidence-based complementary and alternative medicine : eCAM, 2013972863. https://doi.org/10.1155/2013/972863
Xie, Hongdong, et al. "Proteomic analysis of the effect of fuzheng huayu recipe on fibrotic liver in rats." Evidence-based complementary and alternative medicine : eCAM vol. 2013 (2013): 972863. doi: https://doi.org/10.1155/2013/972863
Xie H, Tao Y, Lv J, Liu P, Liu C. Proteomic analysis of the effect of fuzheng huayu recipe on fibrotic liver in rats. Evid Based Complement Alternat Med. 2013;2013:972863. doi: 10.1155/2013/972863. Epub 2013 Jan 29. PMID: 23431353; PMCID: PMC3569931.
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Proteomics analysis of antimalarial targets of Garcinia mangostana Linn.

Asian Pacific journal of tropical biomedicine

Chaijaroenkul W, Thiengsusuk A, Rungsihirunrat K, Ward SA, Na-Bangchang K.
PMID: 25183269
Asian Pac J Trop Biomed. 2014 Jul;4(7):515-9. doi: 10.12980/APJTB.4.2014APJTB-2014-0043.

OBJECTIVE: To investigate possible protein targets for antimalarial activity of Garcinia mangostana Linn. (G. mangostana) (pericarp) in 3D7 Plasmodium falciparum clone using 2-dimensional electrophoresis and liquid chromatography mass-spectrometry (LC/MS/MS).METHODS: 3D7 Plasmodium falciparum was exposed to the crude ethanolic extract...

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Chaijaroenkul W, Thiengsusuk A, Rungsihirunrat K, et al. Proteomics analysis of antimalarial targets of Garcinia mangostana Linn. Asian Pac J Trop Biomed. 2014;4(7):515-9doi: 10.12980/APJTB.4.2014APJTB-2014-0043.
Chaijaroenkul, W., Thiengsusuk, A., Rungsihirunrat, K., Ward, S. A., & Na-Bangchang, K. (2014). Proteomics analysis of antimalarial targets of Garcinia mangostana Linn. Asian Pacific journal of tropical biomedicine, 4(7), 515-9. https://doi.org/10.12980/APJTB.4.2014APJTB-2014-0043
Chaijaroenkul, Wanna, et al. "Proteomics analysis of antimalarial targets of Garcinia mangostana Linn." Asian Pacific journal of tropical biomedicine vol. 4,7 (2014): 515-9. doi: https://doi.org/10.12980/APJTB.4.2014APJTB-2014-0043
Chaijaroenkul W, Thiengsusuk A, Rungsihirunrat K, Ward SA, Na-Bangchang K. Proteomics analysis of antimalarial targets of Garcinia mangostana Linn. Asian Pac J Trop Biomed. 2014 Jul;4(7):515-9. doi: 10.12980/APJTB.4.2014APJTB-2014-0043. PMID: 25183269; PMCID: PMC4032823.
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Comparative Study on Reagents Involved in Grape Bud Break and Their Effects on Different Metabolites and Related Gene Expression during Winter.

Frontiers in plant science

Khalil-Ur-Rehman M, Wang W, Xu YS, Haider MS, Li CX, Tao JM.
PMID: 28824676
Front Plant Sci. 2017 Aug 04;8:1340. doi: 10.3389/fpls.2017.01340. eCollection 2017.

To elucidate promoting and inhibiting effects of hydrogen cynamide (HC) and abscisic acid (ABA) on quiescence release of grape buds, physiological and molecular approaches were used to explore the mechanisms of quiescence based on metabolic and gene expression analysis....

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Khalil-Ur-Rehman M, Wang W, Xu YS, et al. Comparative Study on Reagents Involved in Grape Bud Break and Their Effects on Different Metabolites and Related Gene Expression during Winter. Front Plant Sci. 2017;8:1340doi: 10.3389/fpls.2017.01340.
Khalil-Ur-Rehman, M., Wang, W., Xu, Y. S., Haider, M. S., Li, C. X., & Tao, J. M. (2017). Comparative Study on Reagents Involved in Grape Bud Break and Their Effects on Different Metabolites and Related Gene Expression during Winter. Frontiers in plant science, 81340. https://doi.org/10.3389/fpls.2017.01340
Khalil-Ur-Rehman, Muhammad, et al. "Comparative Study on Reagents Involved in Grape Bud Break and Their Effects on Different Metabolites and Related Gene Expression during Winter." Frontiers in plant science vol. 8 (2017): 1340. doi: https://doi.org/10.3389/fpls.2017.01340
Khalil-Ur-Rehman M, Wang W, Xu YS, Haider MS, Li CX, Tao JM. Comparative Study on Reagents Involved in Grape Bud Break and Their Effects on Different Metabolites and Related Gene Expression during Winter. Front Plant Sci. 2017 Aug 04;8:1340. doi: 10.3389/fpls.2017.01340. eCollection 2017. PMID: 28824676; PMCID: PMC5543042.
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Identification and evaluation of fructose-bisphosphate aldolase B as a potential diagnostic biomarker in choledochal cysts patients: a quantitative proteomic analysis.

Translational pediatrics

Ming G, Guo W, Cheng Y, Wang J.
PMID: 34584879
Transl Pediatr. 2021 Aug;10(8):2083-2094. doi: 10.21037/tp-21-336.

BACKGROUND: Choledochal cyst (CC) is a congenital bile duct malformation, with a higher incidence in minors. Patients with CCs are at risk of pancreatitis and ascending cholangitis. The main forms of treatments aim to avoid any possible hepatic, pancreatic,...

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Ming G, Guo W, Cheng Y, et al. Identification and evaluation of fructose-bisphosphate aldolase B as a potential diagnostic biomarker in choledochal cysts patients: a quantitative proteomic analysis. Transl Pediatr. 2021;10(8):2083-2094doi: 10.21037/tp-21-336.
Ming, G., Guo, W., Cheng, Y., & Wang, J. (2021). Identification and evaluation of fructose-bisphosphate aldolase B as a potential diagnostic biomarker in choledochal cysts patients: a quantitative proteomic analysis. Translational pediatrics, 10(8), 2083-2094. https://doi.org/10.21037/tp-21-336
Ming, Gedong, et al. "Identification and evaluation of fructose-bisphosphate aldolase B as a potential diagnostic biomarker in choledochal cysts patients: a quantitative proteomic analysis." Translational pediatrics vol. 10,8 (2021): 2083-2094. doi: https://doi.org/10.21037/tp-21-336
Ming G, Guo W, Cheng Y, Wang J. Identification and evaluation of fructose-bisphosphate aldolase B as a potential diagnostic biomarker in choledochal cysts patients: a quantitative proteomic analysis. Transl Pediatr. 2021 Aug;10(8):2083-2094. doi: 10.21037/tp-21-336. PMID: 34584879; PMCID: PMC8429877.
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Molecular Characterization of Aldolase from Heterodera glycines and Globodera rostochiensis.

Journal of nematology

Kovaleva ES, Masler EP, Subbotin SA, Chitwood DJ.
PMID: 19262876
J Nematol. 2005 Sep;37(3):292-6.

Fructose-bisphosphate aldolase (EC 4.1.2.13) is a key enzyme in glycolysis. We have characterized full-length coding sequences for aldolase genes from the cyst nematodes Heterodera glycines and Globodera rostochiensis, the first for any plant-parasitic nematode. Nucleotide homology is high (83%...

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Kovaleva ES, Masler EP, Subbotin SA, et al. Molecular Characterization of Aldolase from Heterodera glycines and Globodera rostochiensis. J Nematol. 2005;37(3):292-6
Kovaleva, E. S., Masler, E. P., Subbotin, S. A., & Chitwood, D. J. (2005). Molecular Characterization of Aldolase from Heterodera glycines and Globodera rostochiensis. Journal of nematology, 37(3), 292-6.
Kovaleva, E S, et al. "Molecular Characterization of Aldolase from Heterodera glycines and Globodera rostochiensis." Journal of nematology vol. 37,3 (2005): 292-6.
Kovaleva ES, Masler EP, Subbotin SA, Chitwood DJ. Molecular Characterization of Aldolase from Heterodera glycines and Globodera rostochiensis. J Nematol. 2005 Sep;37(3):292-6. PMID: 19262876; PMCID: PMC2620968.
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Selection of appropriate reference genes for quantitative real-time PCR in Oxytropis ochrocephala Bunge using transcriptome datasets under abiotic stress treatments.

Frontiers in plant science

Zhuang H, Fu Y, He W, Wang L, Wei Y.
PMID: 26175743
Front Plant Sci. 2015 Jun 30;6:475. doi: 10.3389/fpls.2015.00475. eCollection 2015.

BACKGROUND: Oxytropis ochrocephala Bunge, an indigenous locoweed species in China, poses great threats to livestock on grasslands. There is a need for further genetic study in the plants per se, for understanding the basis of its acclimation mechanism in...

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Zhuang H, Fu Y, He W, et al. Selection of appropriate reference genes for quantitative real-time PCR in Oxytropis ochrocephala Bunge using transcriptome datasets under abiotic stress treatments. Front Plant Sci. 2015;6:475doi: 10.3389/fpls.2015.00475.
Zhuang, H., Fu, Y., He, W., Wang, L., & Wei, Y. (2015). Selection of appropriate reference genes for quantitative real-time PCR in Oxytropis ochrocephala Bunge using transcriptome datasets under abiotic stress treatments. Frontiers in plant science, 6475. https://doi.org/10.3389/fpls.2015.00475
Zhuang, Huihui, et al. "Selection of appropriate reference genes for quantitative real-time PCR in Oxytropis ochrocephala Bunge using transcriptome datasets under abiotic stress treatments." Frontiers in plant science vol. 6 (2015): 475. doi: https://doi.org/10.3389/fpls.2015.00475
Zhuang H, Fu Y, He W, Wang L, Wei Y. Selection of appropriate reference genes for quantitative real-time PCR in Oxytropis ochrocephala Bunge using transcriptome datasets under abiotic stress treatments. Front Plant Sci. 2015 Jun 30;6:475. doi: 10.3389/fpls.2015.00475. eCollection 2015. PMID: 26175743; PMCID: PMC4484982.
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Proteomic analysis of extracellular vesicles identified PI3K pathway as a potential therapeutic target for cabazitaxel-resistant prostate cancer.

The Prostate

Hishida S, Kawakami K, Fujita Y, Kato T, Takai M, Iinuma K, Nakane K, Tsuchiya T, Koie T, Miura Y, Ito M, Mizutani K.
PMID: 33905554
Prostate. 2021 Jun;81(9):592-602. doi: 10.1002/pros.24138. Epub 2021 Apr 27.

BACKGROUND: Cabazitaxel (CBZ) is now widely used for prostate cancer (PC) patients resistant to docetaxel (DOC), however, most patients eventually acquire resistance. It will, therefore, be of great benefit to discover novel therapeutic target for the resistance. We aimed...

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Hishida S, Kawakami K, Fujita Y, et al. Proteomic analysis of extracellular vesicles identified PI3K pathway as a potential therapeutic target for cabazitaxel-resistant prostate cancer. Prostate. 2021;81(9):592-602doi: 10.1002/pros.24138.
Hishida, S., Kawakami, K., Fujita, Y., Kato, T., Takai, M., Iinuma, K., Nakane, K., Tsuchiya, T., Koie, T., Miura, Y., Ito, M., & Mizutani, K. (2021). Proteomic analysis of extracellular vesicles identified PI3K pathway as a potential therapeutic target for cabazitaxel-resistant prostate cancer. The Prostate, 81(9), 592-602. https://doi.org/10.1002/pros.24138
Hishida, Seiji, et al. "Proteomic analysis of extracellular vesicles identified PI3K pathway as a potential therapeutic target for cabazitaxel-resistant prostate cancer." The Prostate vol. 81,9 (2021): 592-602. doi: https://doi.org/10.1002/pros.24138
Hishida S, Kawakami K, Fujita Y, Kato T, Takai M, Iinuma K, Nakane K, Tsuchiya T, Koie T, Miura Y, Ito M, Mizutani K. Proteomic analysis of extracellular vesicles identified PI3K pathway as a potential therapeutic target for cabazitaxel-resistant prostate cancer. Prostate. 2021 Jun;81(9):592-602. doi: 10.1002/pros.24138. Epub 2021 Apr 27. PMID: 33905554.
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A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae.

Talanta

Bianco M, Ventura G, Calvano CD, Losito I, Cataldi TRI.
PMID: 34990986
Talanta. 2021 Dec 30;240:123188. doi: 10.1016/j.talanta.2021.123188. Epub 2021 Dec 30.

Since novel nutrient sources with high protein content, such as yeast, fungi, bacteria, algae, and insects, are increasingly introduced in the consumer market, safety evaluation studies on their potentially allergenic proteins are required. A pipeline for in silico establishing...

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Bianco M, Ventura G, Calvano CD, et al. A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae. Talanta. 2021;240:123188doi: 10.1016/j.talanta.2021.123188.
Bianco, M., Ventura, G., Calvano, C. D., Losito, I., & Cataldi, T. R. I. (2021). A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae. Talanta, 240123188. https://doi.org/10.1016/j.talanta.2021.123188
Bianco, Mariachiara, et al. "A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae." Talanta vol. 240 (2021): 123188. doi: https://doi.org/10.1016/j.talanta.2021.123188
Bianco M, Ventura G, Calvano CD, Losito I, Cataldi TRI. A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae. Talanta. 2021 Dec 30;240:123188. doi: 10.1016/j.talanta.2021.123188. Epub 2021 Dec 30. PMID: 34990986.
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A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae.

Talanta

Bianco M, Ventura G, Calvano CD, Losito I, Cataldi TRI.
PMID: 34990986
Talanta. 2021 Dec 30;240:123188. doi: 10.1016/j.talanta.2021.123188. Epub 2021 Dec 30.

Since novel nutrient sources with high protein content, such as yeast, fungi, bacteria, algae, and insects, are increasingly introduced in the consumer market, safety evaluation studies on their potentially allergenic proteins are required. A pipeline for in silico establishing...

Cite
Bianco M, Ventura G, Calvano CD, et al. A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae. Talanta. 2021;240:123188doi: 10.1016/j.talanta.2021.123188.
Bianco, M., Ventura, G., Calvano, C. D., Losito, I., & Cataldi, T. R. I. (2021). A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae. Talanta, 240123188. https://doi.org/10.1016/j.talanta.2021.123188
Bianco, Mariachiara, et al. "A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae." Talanta vol. 240 (2021): 123188. doi: https://doi.org/10.1016/j.talanta.2021.123188
Bianco M, Ventura G, Calvano CD, Losito I, Cataldi TRI. A new paradigm to search for allergenic proteins in novel foods by integrating proteomics analysis and in silico sequence homology prediction: Focus on spirulina and chlorella microalgae. Talanta. 2021 Dec 30;240:123188. doi: 10.1016/j.talanta.2021.123188. Epub 2021 Dec 30. PMID: 34990986.
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