December 20, 2024 at 3:48 PM
New Lab Preprint! We show that ATR inhibition results in hyperactivation of PARP1 at replication forks, driven by APOBEC3B, UNG2, and APE1 reaction cascade targeting unprotected single-stranded DNA at the forks. www.biorxiv.org/content/10.1...
November 16, 2024 at 4:54 PM
New Lab Preprint! We show that ATR inhibition results in hyperactivation of PARP1 at replication forks, driven by APOBEC3B, UNG2, and APE1 reaction cascade targeting unprotected single-stranded DNA at the forks. www.biorxiv.org/content/10.1...
Peyton Oden gave a great talk about how APE1 finds DNA damage using our c-trap at the 24th annual Midwest DNA repair meeting. @lumicks.bsky.social
May 17, 2025 at 8:22 PM
Peyton Oden gave a great talk about how APE1 finds DNA damage using our c-trap at the 24th annual Midwest DNA repair meeting. @lumicks.bsky.social
How does a DNA repair enzyme find a needle in a haystack? 🧬
Our latest paper in NAR, led by the one and only C-trap queen Kaitlin Dehart, uses single-molecule imaging to watch APE1 scan DNA and lock onto AP-sites. @lumicks.bsky.social
academic.oup.com/nar/article/...
Our latest paper in NAR, led by the one and only C-trap queen Kaitlin Dehart, uses single-molecule imaging to watch APE1 scan DNA and lock onto AP-sites. @lumicks.bsky.social
academic.oup.com/nar/article/...
A dynamic search mechanism enables APE1 to identify AP-sites in DNA
Abstract. Apurinic/apyrimidinic (AP) sites are among the most frequent DNA lesions, arising thousands of times per cell each day. These lesions threaten ge
academic.oup.com
June 5, 2026 at 6:20 PM
How does a DNA repair enzyme find a needle in a haystack? 🧬
Our latest paper in NAR, led by the one and only C-trap queen Kaitlin Dehart, uses single-molecule imaging to watch APE1 scan DNA and lock onto AP-sites. @lumicks.bsky.social
academic.oup.com/nar/article/...
Our latest paper in NAR, led by the one and only C-trap queen Kaitlin Dehart, uses single-molecule imaging to watch APE1 scan DNA and lock onto AP-sites. @lumicks.bsky.social
academic.oup.com/nar/article/...
Thrilled to share our lab’s latest work in JBC! 🎉 We uncovered a critical role for APE1 Asn174 in stabilizing AP-sites using mutagenesis, enzymology, crystallography, and MD-simulations. Congrats to Kaitlin Dehart and all the co-authors! Check it out: www.jbc.org/article/S002...
APE1 active site residue Asn174 stabilizes the AP-site and is essential for catalysis
Apurinic/Apyrimidinic (AP)-sites are common and highly mutagenic DNA lesions that
can arise spontaneously or as intermediates during Base Excision Repair (BER). The
enzyme apurinic/apyrimidinic endonu...
www.jbc.org
September 5, 2025 at 4:44 PM
Thrilled to share our lab’s latest work in JBC! 🎉 We uncovered a critical role for APE1 Asn174 in stabilizing AP-sites using mutagenesis, enzymology, crystallography, and MD-simulations. Congrats to Kaitlin Dehart and all the co-authors! Check it out: www.jbc.org/article/S002...
Today, we report that APOBEC3B targets unprotected single-stranded DNA at replication forks upon ATR inhibition, triggering a reaction cascade involving UNG2 and APE1 that leads to fork collapse and hyperactivation of PARP1, causing replication catastrophe.
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Mechanism of DNA replication fork breakage and PARP1 hyperactivation during replication catastrophe
Upon ATR inhibition, APOBEC3B targets unprotected single-stranded DNA at replication forks, leading to fork breakage.
www.science.org
April 16, 2025 at 9:19 PM
Today, we report that APOBEC3B targets unprotected single-stranded DNA at replication forks upon ATR inhibition, triggering a reaction cascade involving UNG2 and APE1 that leads to fork collapse and hyperactivation of PARP1, causing replication catastrophe.
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Congrats to the authors on a beautiful study! 🥳 Very elegant dissection of #LLPS by Rubisco inside the pyrenoid. Our Ape1’s linker is N-terminal, here it’s a separate protein—yet the physics feels strikingly similar. Cryo-ET of disordered networks is tough, but that’s why this work is so impressive.
Excited to share this detailed biophysical study of #PhaseSeparation in the Pyrenoid, an algal microcompartment that fixes a third of the Earth's #CO2 🌏. We combine methods across scales, in vitro 🧪 and in vivo 🦠
Thanks for the very fun collaboration! 🤗
#PlantScience 🌾 #TeamTomo 🔬 #LivingPhysics 🧬🧶
Thanks for the very fun collaboration! 🤗
#PlantScience 🌾 #TeamTomo 🔬 #LivingPhysics 🧬🧶
How does molecular valency shape condensate assembly and function? We used the CO2-fixing organelle in algae—the pyrenoid—to find out… 🧵
Preprint here!:
www.biorxiv.org/content/10.6...
@cellarchlab.com @phaips.vd.st @biologyatyork.bsky.social
#Rubisco #PhaseSeparation #Condensates #Pyrenoid
Preprint here!:
www.biorxiv.org/content/10.6...
@cellarchlab.com @phaips.vd.st @biologyatyork.bsky.social
#Rubisco #PhaseSeparation #Condensates #Pyrenoid
January 31, 2026 at 7:35 PM
Congrats to the authors on a beautiful study! 🥳 Very elegant dissection of #LLPS by Rubisco inside the pyrenoid. Our Ape1’s linker is N-terminal, here it’s a separate protein—yet the physics feels strikingly similar. Cryo-ET of disordered networks is tough, but that’s why this work is so impressive.
Hacedme un favor a mí y hacéoslo a vosotros: leed los Huesos verdes. Hacedme caso. Ved este vídeo, hacedme caso y leed la edición de Insólita.
www.youtube.com/watch?v=APE1...
www.youtube.com/watch?v=APE1...
Saga de los Huesos verdes de Fonda Lee: mi trilogía de fantasía FAVORITA | Reseña con y sin spoilers
YouTube video by Scriptlibros
www.youtube.com
April 1, 2026 at 4:56 PM
Hacedme un favor a mí y hacéoslo a vosotros: leed los Huesos verdes. Hacedme caso. Ved este vídeo, hacedme caso y leed la edición de Insólita.
www.youtube.com/watch?v=APE1...
www.youtube.com/watch?v=APE1...
APE1 is involved in the stabilization/formation of the RC47 complex of PSII in oxygenic prototrophic organisms academic.oup.com/plphys/artic... @plantphys.bsky.social
APE1 is involved in the stabilization/formation of the RC47 complex of PSII in oxygenic prototrophic organisms
The elimination of the protein APE1 leads to a reduction in the levels of the photosynthetic RC47 complex in both plants and cyanobacteria.
academic.oup.com
December 18, 2025 at 1:29 PM
APE1 is involved in the stabilization/formation of the RC47 complex of PSII in oxygenic prototrophic organisms academic.oup.com/plphys/artic... @plantphys.bsky.social
Our new review lead by PhD student, Hannah Lalunio, on "The Potential of Targeting APE1/Ref-1 as a Therapeutic Intervention for Duchenne Muscular Dystrophy" with Prof Alan Hayes and Dr Nicole Stupka
www.liebertpub.com/doi/10.1089/...
www.liebertpub.com/doi/10.1089/...
The Potential of Targeting APE1/Ref-1 as a Therapeutic Intervention for Duchenne Muscular Dystrophy | Antioxidants & Redox Signaling
Significance: Inflammation and oxidative stress play crucial roles in the development and progression of skeletal muscle diseases. This review aims to examine the existing evidence regarding the invol...
www.liebertpub.com
December 27, 2024 at 8:13 PM
Our new review lead by PhD student, Hannah Lalunio, on "The Potential of Targeting APE1/Ref-1 as a Therapeutic Intervention for Duchenne Muscular Dystrophy" with Prof Alan Hayes and Dr Nicole Stupka
www.liebertpub.com/doi/10.1089/...
www.liebertpub.com/doi/10.1089/...
Pale Saints ~ Thread of Light
(from In Ribbons, 4AD 1992)
#NowPlaying #PaleSaints #DreamPop #MusicSky
The little recognized, classic band that launched countless Dream Pop / Shoegaze bands in the UK. Apart from the Cocteau's, this is the best of them.
www.youtube.com/watch?v=aPE1...
(from In Ribbons, 4AD 1992)
#NowPlaying #PaleSaints #DreamPop #MusicSky
The little recognized, classic band that launched countless Dream Pop / Shoegaze bands in the UK. Apart from the Cocteau's, this is the best of them.
www.youtube.com/watch?v=aPE1...
Pale Saints - Thread Of Light (Official Visualiser)
YouTube video by 4AD
www.youtube.com
April 10, 2026 at 1:13 AM
Pale Saints ~ Thread of Light
(from In Ribbons, 4AD 1992)
#NowPlaying #PaleSaints #DreamPop #MusicSky
The little recognized, classic band that launched countless Dream Pop / Shoegaze bands in the UK. Apart from the Cocteau's, this is the best of them.
www.youtube.com/watch?v=aPE1...
(from In Ribbons, 4AD 1992)
#NowPlaying #PaleSaints #DreamPop #MusicSky
The little recognized, classic band that launched countless Dream Pop / Shoegaze bands in the UK. Apart from the Cocteau's, this is the best of them.
www.youtube.com/watch?v=aPE1...
getting used to my tablet again~ here's a fun lil doodle. and a new OC (I really like stars and crowns in character designs) anyways hope you like~ he needs a name
February 24, 2026 at 6:48 AM
getting used to my tablet again~ here's a fun lil doodle. and a new OC (I really like stars and crowns in character designs) anyways hope you like~ he needs a name
Additionally, we show that APE1-mediated DNA cleavage is the critical step for PARP1 trapping and hyperactivation in cells, regardless of how abasic sites are formed, likely through the generation of 5'-dRP on DNA.
November 16, 2024 at 4:54 PM
Additionally, we show that APE1-mediated DNA cleavage is the critical step for PARP1 trapping and hyperactivation in cells, regardless of how abasic sites are formed, likely through the generation of 5'-dRP on DNA.
McKinnon’s lab studies proteins such as APE1 and PNKP, which are critical for DNA repair. Loss of APE1 leads to severe apoptosis during brain development, while PNKP mutations cause neuropathy and neurodegeneration. These findings offer models for understanding disease mechanisms.
June 26, 2025 at 1:00 PM
McKinnon’s lab studies proteins such as APE1 and PNKP, which are critical for DNA repair. Loss of APE1 leads to severe apoptosis during brain development, while PNKP mutations cause neuropathy and neurodegeneration. These findings offer models for understanding disease mechanisms.
A Dynamic Search Mechanism Enables APE1 to Identify AP-Sites in DNA https://www.biorxiv.org/content/10.64898/2026.01.06.697944v1
January 7, 2026 at 2:45 AM
A Dynamic Search Mechanism Enables APE1 to Identify AP-Sites in DNA https://www.biorxiv.org/content/10.64898/2026.01.06.697944v1
APE1 Coordinates Its Disordered Region and Metal Cofactors to Drive Genome Surveillance https://www.biorxiv.org/content/10.64898/2025.12.28.696760v1
December 29, 2025 at 12:16 PM
APE1 Coordinates Its Disordered Region and Metal Cofactors to Drive Genome Surveillance https://www.biorxiv.org/content/10.64898/2025.12.28.696760v1
APE1 is involved in the stabilization/formation of the RC47 complex of PSII in oxygenic prototrophic organisms (Diego Torres-Romero , María Isabel Muro-Pastor , Francisco José Arana , et al) doi.org/10.1093/plph... #PlantScience @aspbofficial
APE1 is involved in the stabilization/formation of the RC47 complex of PSII in oxygenic prototrophic organisms
The elimination of the protein APE1 leads to a reduction in the levels of the photosynthetic RC47 complex in both plants and cyanobacteria.
doi.org
February 12, 2026 at 2:09 PM
APE1 is involved in the stabilization/formation of the RC47 complex of PSII in oxygenic prototrophic organisms (Diego Torres-Romero , María Isabel Muro-Pastor , Francisco José Arana , et al) doi.org/10.1093/plph... #PlantScience @aspbofficial
APE1 Coordinates Its Disordered Region and Metal Cofactors to Drive Genome Surveillance https://www.biorxiv.org/content/10.64898/2025.12.28.696760v1
December 29, 2025 at 12:16 PM
APE1 Coordinates Its Disordered Region and Metal Cofactors to Drive Genome Surveillance https://www.biorxiv.org/content/10.64898/2025.12.28.696760v1
Congrats to PhD student, Hannah Lalunio, Dr Nicole Stupka, Prof Alan Hayes, and the CMR's @craigagoodman1.bsky.social for their new review on "The Potential of Targeting APE1/Ref-1 as a Therapeutic Intervention for Duchenne Muscular Dystrophy"
www.liebertpub.com/doi/10.1089/...
www.liebertpub.com/doi/10.1089/...
The Potential of Targeting APE1/Ref-1 as a Therapeutic Intervention for Duchenne Muscular Dystrophy | Antioxidants & Redox Signaling
Significance: Inflammation and oxidative stress play crucial roles in the development and progression of skeletal muscle diseases. This review aims to examine the existing evidence regarding the invol...
www.liebertpub.com
December 27, 2024 at 8:30 PM
Congrats to PhD student, Hannah Lalunio, Dr Nicole Stupka, Prof Alan Hayes, and the CMR's @craigagoodman1.bsky.social for their new review on "The Potential of Targeting APE1/Ref-1 as a Therapeutic Intervention for Duchenne Muscular Dystrophy"
www.liebertpub.com/doi/10.1089/...
www.liebertpub.com/doi/10.1089/...
wasn't kidding about the time; this is a huge personal deal for me TBH because ejecting from this game due to this fight - and my inability to beat it on every return to it - has been a constant thorn
April 8, 2024 at 4:34 AM
wasn't kidding about the time; this is a huge personal deal for me TBH because ejecting from this game due to this fight - and my inability to beat it on every return to it - has been a constant thorn
RRIDs were included in this in Nucleic Acids Research paper. Thanks for making your methods matter! #OpenResearch #STMpublishing #ReproducibleResearch
Endogenous promoter G-quadruplexes scaffold apurinic/apyrimidinic endonuclease (APE1) to drive gene expression
Read the full paper: Endogenous promoter G-quadruplexes scaffold apurinic/apyrimidinic endonuclease (APE1) to drive gene expression
doi.org
April 9, 2026 at 7:00 AM
RRIDs were included in this in Nucleic Acids Research paper. Thanks for making your methods matter! #OpenResearch #STMpublishing #ReproducibleResearch
Clonal hematopoiesis, an age-related blood mutation, has been linked to increased severity of inflammatory bowel disease; targeting the APE1/Ref-1 pathway may offer a new treatment approach.
Hidden blood mutations drive severe inflammatory bowel disease, but a new treatment target is in sight
Indiana University School of Medicine scientists have uncovered new evidence that an age-related blood condition may contribute to inflammatory bowel disease (IBD).
medicalxpress.com
March 9, 2026 at 10:40 PM
Clonal hematopoiesis, an age-related blood mutation, has been linked to increased severity of inflammatory bowel disease; targeting the APE1/Ref-1 pathway may offer a new treatment approach.
Orchestrated metal ion repositioning defines the dynamic catalytic strategy of the essential DNA repair nuclease APE1 https://www.biorxiv.org/content/10.64898/2026.05.11.724140v1
May 14, 2026 at 5:45 PM
Orchestrated metal ion repositioning defines the dynamic catalytic strategy of the essential DNA repair nuclease APE1 https://www.biorxiv.org/content/10.64898/2026.05.11.724140v1