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Articles

Root system growth and development responses to elevated CO 2 : underlying signalling mechanisms and role in improving plant CO 2 capture and soil C storage

In Collection

Plants and climate change: the role of plants in achieving net zero

Liên Bach, Alain Gojon

Biochem J (2023) 480 (11): 753–771.

DOI: https://doi.org/10.1042/BCJ20220245

Published: 02 June 2023

View article titled, Root system growth and development responses to elevated CO 2 : underlying signalling mechanisms and role in improving plant CO 2 capture and soil C storage

Articles

Novel insights into the recognition of acetylated histone H4 tail by the TRIM24 PHD-Bromo module

Ishita Bardhan, Soumen Barman, Anirban Roy, Babu Sudhamalla

Biochem J (2023) 480 (9): 629–647.

DOI: https://doi.org/10.1042/BCJ20230011

Published: 10 May 2023

View article titled, Novel insights into the recognition of acetylated histone H4 tail by the TRIM24 PHD-Bromo module

Includes: Supplementary data

Articles

Identification and characterization of the Doublesex gene and its mRNA isoforms in the brine shrimp Artemia franciscana

Wen-Tao Wu, Lian-Ying Xu, Zhi-Jun Yan, Ning Bi, Cai-Yuan Cheng, Fan Yang, Wei-Jun Yang, Jin-Shu Yang

Biochem J (2023) 480 (5): 385–401.

DOI: https://doi.org/10.1042/BCJ20220495

Published: 15 March 2023

View article titled, Identification and characterization of the Doublesex gene and its mRNA isoforms in the brine shrimp Artemia franciscana

Includes: Supplementary data

Articles

The NFkB activation domain is 14-amino-acid-long variant of the 9aaTAD

Josef Houser, Kristina Jendruchova, Andrea Knight, Martin Piskacek

Biochem J (2023) 480 (5): 297–306.

DOI: https://doi.org/10.1042/BCJ20220605

Published: 09 March 2023

View article titled, The NFkB activation domain is 14-amino-acid-long variant of the 9aaTAD

Includes: Supplementary data

Articles

GLI1 interaction with p300 modulates SDF1 expression in cancer-associated fibroblasts to promote pancreatic cancer cells migration

Renzo E. Vera, María J. Lamberti, Luciana L. Almada, Ezequiel J. Tolosa, Anne M. Vrabel, Ashley N. Sigafoos, Merih D. Toruner, Luis F. Flores, Viviana A. Rivarola, Natalia B. Rumie Vittar, Martín E. Fernández-Zapico

Biochem J (2023) 480 (3): 225–241.

DOI: https://doi.org/10.1042/BCJ20220521

Published: 14 February 2023

View article titled, GLI1 interaction with p300 modulates SDF1 expression in cancer-associated fibroblasts to promote pancreatic cancer cells migration

Includes: Supplementary data

Articles

Characterizing crosstalk in epigenetic signaling to understand disease physiology

In Collection

Cell signaling in the 21st century

Joanna K. Lempiäinen, Benjamin A. Garcia

Biochem J (2023) 480 (1): 57–85.

DOI: https://doi.org/10.1042/BCJ20220550

Published: 11 January 2023

View article titled, Characterizing crosstalk in epigenetic signaling to understand disease physiology

Articles

Structural and functional organization of germ plasm condensates

Austin Chiappetta, Jeffrey Liao, Siran Tian, Tatjana Trcek

Biochem J (2022) 479 (24): 2477–2495.

DOI: https://doi.org/10.1042/BCJ20210815

Published: 19 December 2022

View article titled, Structural and functional organization of germ plasm condensates

Articles

Regulation of B cell receptor signalling by Epstein–Barr virus nuclear antigens

Sarika Khasnis, Hildegonda Veenstra, Michael J. McClellan, Opeoluwa Ojeniyi, C. David Wood, Michelle J. West

Biochem J (2022) 479 (23): 2395–2417.

DOI: https://doi.org/10.1042/BCJ20220417

Published: 07 December 2022

View article titled, Regulation of B cell receptor signalling by Epstein–Barr virus nuclear antigens

Includes: Supplementary data

Articles

Poly-ADP ribosylation of p21 by tankyrases promotes p21 degradation and regulates cell cycle progression

Misun Jung, Wonyoung Kim, Jin Won Cho, Won Ho Yang, In Kwon Chung

Biochem J (2022) 479 (22): 2379–2394.

DOI: https://doi.org/10.1042/BCJ20220391

Published: 30 November 2022

View article titled, Poly-ADP ribosylation of p21 by tankyrases promotes p21 degradation and regulates cell cycle progression

Includes: Supplementary data

Articles

The C-terminal region of phytoene synthase is a key element to control carotenoid biosynthesis in the haloarchaeon Haloferax volcanii

Micaela Cerletti, Agustín Rabino, Roberto A. Paggi, Celeste Ferrari, Ansgar Poetsch, Harri Savilahti, Saija Kiljunen, Rosana E. De Castro

Biochem J (2022) 479 (22): 2365–2377.

DOI: https://doi.org/10.1042/BCJ20220403

Published: 23 November 2022

View article titled, The C-terminal region of phytoene synthase is a key element to control carotenoid biosynthesis in the haloarchaeon Haloferax volcanii

Includes: Supplementary data

Articles

Up-regulation of the PI3K/AKT and RHO/RAC/PAK signalling pathways in CHK1 inhibitor resistant Eµ-Myc lymphoma cells

Jill E. Hunter, Amy E. Campbell, Scott Kerridge, Callum Fraser, Nicola L. Hannaway, Saimir Luli, Iglika Ivanova, Philip J. Brownridge, Jonathan Coxhead, Leigh Taylor, Peter Leary, Megan S. R. Hasoon, Claire E. Eyers, Neil D. Perkins

Biochem J (2022) 479 (19): 2131–2151.

DOI: https://doi.org/10.1042/BCJ20220103

Published: 14 October 2022

View article titled, Up-regulation of the PI3K/AKT and RHO/RAC/PAK signalling pathways in CHK1 inhibitor resistant Eµ-Myc lymphoma cells

Includes: Supplementary data

Articles

Carbidopa, an activator of aryl hydrocarbon receptor, suppresses IDO1 expression in pancreatic cancer and decreases tumor growth

Ksenija Korac, Devaraja Rajasekaran, Tyler Sniegowski, Bradley K. Schniers, Andrew F. Ibrahim, Yangzom D. Bhutia

Biochem J (2022) 479 (17): 1807–1824.

DOI: https://doi.org/10.1042/BCJ20210851

Published: 06 September 2022

View article titled, Carbidopa, an activator of aryl hydrocarbon receptor, suppresses IDO1 expression in pancreatic cancer and decreases tumor growth

Includes: Supplementary data

Articles

Characterization of functionally deficient SIM2 variants found in patients with neurological phenotypes

Emily L. Button, Joseph J. Rossi, Daniel P. McDougal, John B. Bruning, Daniel J. Peet, David C. Bersten, Jill A. Rosenfeld, Murray L. Whitelaw

Biochem J (2022) 479 (13): 1441–1454.

DOI: https://doi.org/10.1042/BCJ20220209

Published: 13 July 2022

View article titled, Characterization of functionally deficient SIM2 variants found in patients with neurological phenotypes

Includes: Supplementary data

Articles

Alphabetti kinase Spaghetti: the complex roles of IKKα and β in the canonical NF-κB pathway

In Collection

Cell death and survival

Neil D. Perkins

Biochem J (2022) 479 (11): 1121–1126.

DOI: https://doi.org/10.1042/BCJ20220023

Published: 01 June 2022

View article titled, Alphabetti kinase Spaghetti: the complex roles of IKKα and β in the canonical NF-κB pathway

Articles

The role of eIF2 phosphorylation in cell and organismal physiology: new roles for well-known actors

Xuemin Wang, Christopher G. Proud

Biochem J (2022) 479 (10): 1059–1082.

DOI: https://doi.org/10.1042/BCJ20220068

Published: 23 May 2022

View article titled, The role of eIF2 phosphorylation in cell and organismal physiology: new roles for well-known actors

Articles

No-nonsense: insights into the functional interplay of nonsense-mediated mRNA decay factors

Justine Mailliot, Mirella Vivoli-Vega, Christiane Schaffitzel

Biochem J (2022) 479 (9): 973–993.

DOI: https://doi.org/10.1042/BCJ20210556

Published: 12 May 2022

View article titled, No-nonsense: insights into the functional interplay of nonsense-mediated mRNA decay factors

Articles

Regulation of chromatin accessibility by hypoxia and HIF

In Collection

Towards systems biochemistry

Michael Batie, Julianty Frost, Dilem Shakir, Sonia Rocha

Biochem J (2022) 479 (6): 767–786.

DOI: https://doi.org/10.1042/BCJ20220008

Published: 28 March 2022

View article titled, Regulation of chromatin accessibility by hypoxia and HIF

Includes: Supplementary data

Articles

Adaptor protein 3BP2 regulates dectin-1-mediated cellular signalling to induce cytokine expression and NF-κB activation

Kazuyasu Chihara, Yuri Chihara, Kenji Takeuchi, Kiyonao Sada

Biochem J (2022) 479 (4): 503–523.

DOI: https://doi.org/10.1042/BCJ20210707

Published: 23 February 2022

View article titled, Adaptor protein 3BP2 regulates dectin-1-mediated cellular signalling to induce cytokine expression and NF-κB activation

Includes: Supplementary data

Articles

APLNR Regulates IFN-γ signaling via β-arrestin 1 mediated JAK-STAT1 pathway in melanoma cells

Yingying Liu, Xiaochuan Ma, Hui Yang, Xun Li, Yingli Ma, Brandon Ason, Suling Liu, Liaoyuan A. Hu

Biochem J (2022) 479 (3): 385–399.

DOI: https://doi.org/10.1042/BCJ20210813

Published: 11 February 2022

View article titled, APLNR Regulates IFN-γ signaling via β-arrestin 1 mediated JAK-STAT1 pathway in melanoma cells

Includes: Supplementary data

Articles

Systems approaches to understand oxygen sensing: how multi-omics has driven advances in understanding oxygen-based signalling

In Collection

Towards systems biochemistry

Michael Batie, Niall S. Kenneth, Sonia Rocha

Biochem J (2022) 479 (3): 245–257.

DOI: https://doi.org/10.1042/BCJ20210554

Published: 04 February 2022

View article titled, Systems approaches to understand oxygen sensing: how multi-omics has driven advances in understanding oxygen-based signalling

Articles

Proteomic analysis identifies ZMYM2 as endogenous binding partner of TBX18 protein in 293 and A549 cells

Timo H.-W. Lüdtke, Marc-Jens Kleppa, Reginaldo Rivera-Reyes, Fairouz Qasrawi, Dervla M. Connaughton, Shirlee Shril, Friedhelm Hildebrandt, Andreas Kispert

Biochem J (2022) 479 (1): 91–109.

DOI: https://doi.org/10.1042/BCJ20210642

Published: 14 January 2022

View article titled, Proteomic analysis identifies ZMYM2 as endogenous binding partner of TBX18 protein in 293 and A549 cells

Includes: Supplementary data

Articles

An ERK5–KLF2 signalling module regulates early embryonic gene expression and telomere rejuvenation in stem cells

Helen A. Brown, Charles A.C. Williams, Houjiang Zhou, Diana Rios-Szwed, Rosalia Fernandez-Alonso, Saria Mansoor, Liam McMulkin, Rachel Toth, Robert Gourlay, Julien Peltier, Nora Dieguez-Martinez, Matthias Trost, Jose M. Lizcano, Marios P. Stavridis, Greg M. Findlay

Biochem J (2021) 478 (23): 4119–4136.

DOI: https://doi.org/10.1042/BCJ20210646

Published: 06 December 2021

View article titled, An ERK5–KLF2 signalling module regulates early embryonic gene expression and telomere rejuvenation in stem cells

Articles

Signalling dynamics in embryonic development

Katharina F. Sonnen, Claudia Y. Janda

Biochem J (2021) 478 (23): 4045–4070.

DOI: https://doi.org/10.1042/BCJ20210043

Published: 06 December 2021

View article titled, Signalling dynamics in embryonic development

Articles

BACH1, the master regulator of oxidative stress, has a dual effect on CFTR expression

Monali NandyMazumdar, Alekh Paranjapye, James Browne, Shiyi Yin, Shih-Hsing Leir, Ann Harris

Biochem J (2021) 478 (20): 3741–3756.

DOI: https://doi.org/10.1042/BCJ20210252

Published: 21 October 2021

View article titled, BACH1, the master regulator of oxidative stress, has a dual effect on CFTR expression

Includes: Supplementary data

Articles

SREBP-1c and lipogenesis in the liver: an update

In Collection

Celebrating 100 years of insulin research

Pascal Ferré, Franck Phan, Fabienne Foufelle

Biochem J (2021) 478 (20): 3723–3739.

DOI: https://doi.org/10.1042/BCJ20210071

Published: 21 October 2021

View article titled, SREBP-1c and lipogenesis in the liver: an update

Articles

The many ways that nature has exploited the unusual structural and chemical properties of phosphohistidine for use in proteins

Rajasree Kalagiri, Tony Hunter

Biochem J (2021) 478 (19): 3575–3596.

DOI: https://doi.org/10.1042/BCJ20210533

Published: 08 October 2021

View article titled, The many ways that nature has exploited the unusual structural and chemical properties of phosphohistidine for use in proteins

Includes: Supplementary data

Articles

The roles of epigenetics in cancer progression and metastasis

Jocelyn F. Chen, Qin Yan

Biochem J (2021) 478 (17): 3373–3393.

DOI: https://doi.org/10.1042/BCJ20210084

Published: 14 September 2021

View article titled, The roles of epigenetics in cancer progression and metastasis

Articles

TFEB phosphorylation on Serine 211 is induced by autophagy in human synovial fibroblasts and by p62/SQSTM1 overexpression in HEK293 cells

Biserka Relic, Celine Deroyer, Olivier Malaise, Zelda Plener, Philippe Gillet, Dominique de Seny, Michel G. Malaise

Biochem J (2021) 478 (16): 3145–3155.

DOI: https://doi.org/10.1042/BCJ20210174

Published: 27 August 2021

View article titled, TFEB phosphorylation on Serine 211 is induced by autophagy in human synovial fibroblasts and by p62/SQSTM1 overexpression in HEK293 cells

Articles

Functional insights into Mycobacterium tuberculosis DevR-dependent transcriptional machinery utilizing Escherichia coli

Saurabh Sharma, Ramesh Kumar, Ayushi Jain, Manoj Kumar, Rahul Gauttam, Rajdeep Banerjee, Jayanta Mukhopadhyay, Jaya Sivaswami Tyagi

Biochem J (2021) 478 (16): 3079–3098.

DOI: https://doi.org/10.1042/BCJ20210268

Published: 20 August 2021

View article titled, Functional insights into Mycobacterium tuberculosis DevR-dependent transcriptional machinery utilizing Escherichia coli

Includes: Supplementary data

Articles

PARP7 mono-ADP-ribosylates the agonist conformation of the androgen receptor in the nucleus

Teddy Kamata, Chun-Song Yang, Bryce M. Paschal

Biochem J (2021) 478 (15): 2999–3014.

DOI: https://doi.org/10.1042/BCJ20210378

Published: 10 August 2021

View article titled, PARP7 mono-ADP-ribosylates the agonist conformation of the androgen receptor in the nucleus

Articles

Translational regulation in pathogenic and beneficial plant–microbe interactions

Soledad Traubenik, Milagros Ferrari, Flavio Antonio Blanco, María Eugenia Zanetti

Biochem J (2021) 478 (14): 2775–2788.

DOI: https://doi.org/10.1042/BCJ20210066

Published: 23 July 2021

View article titled, Translational regulation in pathogenic and beneficial plant–microbe interactions

Articles

An all-out assault on SARS-CoV-2 replication

In Collection

Coronavirus , Tackling SARS-CoV-2 biochemistry

Ronald T. Hay

Biochem J (2021) 478 (13): 2399–2403.

DOI: https://doi.org/10.1042/BCJ20210256

Published: 02 July 2021

View article titled, An all-out assault on SARS-CoV-2 replication

Articles

Characterization of the structural determinants of the ubiquitin-dependent proteasomal degradation of human hepatic tryptophan 2,3-dioxygenase

Yi Liu, Sung-Mi Kim, YongQiang Wang, Shay Karkashon, Ariel Lewis-Ballester, Syun-Ru Yeh, Maria Almira Correia

Biochem J (2021) 478 (10): 1999–2017.

DOI: https://doi.org/10.1042/BCJ20210213

Published: 28 May 2021

View article titled, Characterization of the structural determinants of the ubiquitin-dependent proteasomal degradation of human hepatic tryptophan 2,3-dioxygenase

Includes: Supplementary data

Articles

Inositol pyrophosphates promote MYC polyubiquitination by FBW7 to regulate cell survival

Padmavathi Lolla, Akruti Shah, C.P. Unnikannan, Vineesha Oddi, Rashna Bhandari

Biochem J (2021) 478 (8): 1647–1661.

DOI: https://doi.org/10.1042/BCJ20210081

Published: 30 April 2021

View article titled, Inositol pyrophosphates promote MYC polyubiquitination by FBW7 to regulate cell survival

Includes: Supplementary data

Articles

Pyrophosphate as an alternative energy currency in plants

Abir U. Igamberdiev, Leszek A. Kleczkowski

Biochem J (2021) 478 (8): 1515–1524.

DOI: https://doi.org/10.1042/BCJ20200940

Published: 21 April 2021

View article titled, Pyrophosphate as an alternative energy currency in plants

Articles

FoxA2 and RNA Pol II mediate human islet amyloid polypeptide turnover in ER-stressed pancreatic β-cells

Diti Chatterjee Bhowmick, Lydia Burnett, Zhanar Kudaibergenova, Aleksandar M. Jeremic

Biochem J (2021) 478 (6): 1261–1282.

DOI: https://doi.org/10.1042/BCJ20200984

Published: 19 March 2021

View article titled, FoxA2 and RNA Pol II mediate human islet amyloid polypeptide turnover in ER-stressed pancreatic β-cells

Includes: Multimedia, Supplementary data

Articles

Structural insights into histone chaperone Asf1 and its characterization from Plasmodium falciparum

Dushyant Kumar Srivastava, Sarika Gunjan, Chandrima Das, Vasudevan Seshadri, Siddhartha Roy

Biochem J (2021) 478 (5): 1117–1136.

DOI: https://doi.org/10.1042/BCJ20200891

Published: 10 March 2021

View article titled, Structural insights into histone chaperone Asf1 and its characterization from Plasmodium falciparum

Includes: Supplementary data

Articles

Eukaryotic protein uS19: a component of the decoding site of ribosomes and a player in human diseases

Dmitri Graifer, Galina Karpova

Biochem J (2021) 478 (5): 997–1008.

DOI: https://doi.org/10.1042/BCJ20200950

Published: 04 March 2021

View article titled, Eukaryotic protein uS19: a component of the decoding site of ribosomes and a player in human diseases

Articles

The cooperation of cis -elements during M-cadherin promoter activation

Yung-Jui Lin, Chien-Han Kao, Sheng-Pin Hsiao, Shen-Liang Chen

Biochem J (2021) 478 (4): 911–926.

DOI: https://doi.org/10.1042/BCJ20200535

Published: 26 February 2021

View article titled, The cooperation of cis -elements during M-cadherin promoter activation

Includes: Supplementary data

Articles

Phase transition of fibrillarin LC domain regulates localization and protein interaction of fibrillarin

Eunji Kim, Ilmin Kwon

Biochem J (2021) 478 (4): 799–810.

DOI: https://doi.org/10.1042/BCJ20200847

Published: 24 February 2021

View article titled, Phase transition of fibrillarin LC domain regulates localization and protein interaction of fibrillarin

Includes: Supplementary data

Articles

PKCα/ERK/C7ORF41 axis regulates epidermal keratinocyte differentiation through the IKKα nuclear translocation

Feng-Juan Yan, Yong-Jian Wang, Song-En Wang, Hai-Ting Hong

Biochem J (2021) 478 (4): 839–854.

DOI: https://doi.org/10.1042/BCJ20200879

Published: 24 February 2021

View article titled, PKCα/ERK/C7ORF41 axis regulates epidermal keratinocyte differentiation through the IKKα nuclear translocation

Includes: Supplementary data

Articles

Down-regulated microRNA-199a-3p enhances osteogenic differentiation of bone marrow mesenchymal stem cells by targeting Kdm3a in ovariectomized rats

Jian-Cheng Wu, Jie Sun, Jia-Cheng Xu, Zhen-Yu Zhou, Ya-Feng Zhang

Biochem J (2021) 478 (4): 721–734.

DOI: https://doi.org/10.1042/BCJ20200314

Published: 18 February 2021

View article titled, Down-regulated microRNA-199a-3p enhances osteogenic differentiation of bone marrow mesenchymal stem cells by targeting Kdm3a in ovariectomized rats

Includes: Supplementary data

Articles

Combinations of histone post-translational modifications

Bethany C. Taylor, Nicolas L. Young

Biochem J (2021) 478 (3): 511–532.

DOI: https://doi.org/10.1042/BCJ20200170

Published: 10 February 2021

View article titled, Combinations of histone post-translational modifications

Articles

Phasing the intranuclear organization of steroid hormone receptors

Martin Stortz, Diego M. Presman, Adali Pecci, Valeria Levi

Biochem J (2021) 478 (2): 443–461.

DOI: https://doi.org/10.1042/BCJ20200883

Published: 29 January 2021

View article titled, Phasing the intranuclear organization of steroid hormone receptors

Articles

Stability of Smyd1 in endothelial cells is controlled by PML-dependent SUMOylation upon cytokine stimulation

Samuel Becker, Gustav Steinemann, Weronika Karle, Kerrin Roos, Celine Huajia Liem, Shalini Muralikumar, Andrea Volkamer, Barbara Munz, Andreas Zakrzewicz, Janine Berkholz

Biochem J (2021) 478 (1): 217–234.

DOI: https://doi.org/10.1042/BCJ20200603

Published: 15 January 2021

View article titled, Stability of Smyd1 in endothelial cells is controlled by PML-dependent SUMOylation upon cytokine stimulation

Includes: Supplementary data

Articles

The RNA-binding protein HuR regulates intestinal epithelial restitution by modulating Caveolin-1 gene expression

Shan Cao, Lan Xiao, Junyao Wang, Guodong Chen, Yulan Liu

Biochem J (2021) 478 (1): 247–260.

DOI: https://doi.org/10.1042/BCJ20200372

Published: 15 January 2021

View article titled, The RNA-binding protein HuR regulates intestinal epithelial restitution by modulating Caveolin-1 gene expression

Articles

Elucidation of an essential function of the unique charged domain of Plasmodium topoisomerase III

Shephali Bansod, Navneet Bung, Priyanka Singh, Niranjan Suthram, Himashree Choudhury, Arijit Roy, Gopalakrishnan Bulusu, Sunanda Bhattacharyya

Biochem J (2020) 477 (24): 4745–4767.

DOI: https://doi.org/10.1042/BCJ20200318

Published: 24 December 2020

View article titled, Elucidation of an essential function of the unique charged domain of Plasmodium topoisomerase III

Includes: Multimedia, Supplementary data

Articles

Methylation of two-component response regulator MtrA in mycobacteria negatively modulates its DNA binding and transcriptional activation

Anshika Singhal, Richa Virmani, Saba Naz, Gunjan Arora, Mohita Gaur, Parijat Kundu, Andaleeb Sajid, Richa Misra, Ankita Dabla, Suresh Kumar, Jacob Nellissery, Virginie Molle, Ulf Gerth, Anand Swaroop, Kirti Sharma, Vinay K. Nandicoori, Yogendra Singh

Biochem J (2020) 477 (23): 4473–4489.

DOI: https://doi.org/10.1042/BCJ20200455

Published: 03 December 2020

View article titled, Methylation of two-component response regulator MtrA in mycobacteria negatively modulates its DNA binding and transcriptional activation

Includes: Supplementary data

Articles

PROTEIN l-ISOASPARTYL METHYLTRANSFERASE (PIMT) in plants: regulations and functions

Nitin Uttam Kamble, Manoj Majee

Biochem J (2020) 477 (22): 4453–4471.

DOI: https://doi.org/10.1042/BCJ20200794

Published: 27 November 2020

View article titled, PROTEIN l-ISOASPARTYL METHYLTRANSFERASE (PIMT) in plants: regulations and functions

Articles

Another twist to the GLI code

Alex J. Timmis, Natalia A. Riobo-Del Galdo

Biochem J (2020) 477 (22): 4343–4347.

DOI: https://doi.org/10.1042/BCJ20200617

Published: 26 November 2020

View article titled, Another twist to the GLI code

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