add subject metadata

src/cai_lab_to_nwb/zaki_2024/zaki_2024_metadata.yaml

@@ -10,23 +10,22 @@ NWBFile:
     - aversive
   related_publications:
     - https://doi.org/10.1038/s41586-024-08168-4
-  session_description:
-    In memory-linking behavioural experiments, mice were exposed to the neutral context for 10 min to explore. 
-    During aversive encoding, after a baseline period of 2 min, mice received three 2 s foot shocks of either amplitude 
-    0.25 mA (low-shock) or 1.5 mA (high-shock), with an intershock interval of 1 min. 
-    Then, 30 s after the final shock, the mice were removed and returned to the vivarium. 
-    On the next 3 days, the mice were tested in the previously experienced aversive and neutral contexts, 
-    as well as a completely novel context that they had not been exposed to previously, for 5 min each. 
-    The features of the neutral and novel contexts were counter-balanced and were made up of different olfactory, 
-    auditory, lighting and tactile cues. 
-    The aversive context was always the same with distinct cues from the neutral and novel contexts. 
-    In the low- versus high-shock experiments mice were tested in the aversive context first, 
-    followed by testing in the neutral and novel context counter-balanced; 
-    half of the mice received neutral recall and then novel-context exposure the next day, 
-    and the other half received novel-context exposure and then neutral recall.
   experiment_description:
     Simultaneous calcium imaging with Miniscopes and EEG/EMG experiment during retrospective memory-linking behavioral paradigm, 
-    to test whether ensemble co-reactivation is sleep-state specific
+    to test whether ensemble co-reactivation is sleep-state specific.
+    Mice were exposed to the neutral context for 10 min to explore.
+    During aversive encoding, after a baseline period of 2 min, mice received three 2 s foot shocks of either amplitude
+    0.25 mA (low-shock) or 1.5 mA (high-shock), with an intershock interval of 1 min.
+    Then, 30 s after the final shock, the mice were removed and returned to the vivarium.
+    On the next 3 days, the mice were tested in the previously experienced aversive and neutral contexts,
+    as well as a completely novel context that they had not been exposed to previously, for 5 min each.
+    The features of the neutral and novel contexts were counter-balanced and were made up of different olfactory,
+    auditory, lighting and tactile cues.
+    The aversive context was always the same with distinct cues from the neutral and novel contexts.
+    In the low- versus high-shock experiments mice were tested in the aversive context first,
+    followed by testing in the neutral and novel context counter-balanced;
+    half of the mice received neutral recall and then novel-context exposure the next day,
+    and the other half received novel-context exposure and then neutral recall.
   institution: Icahn School of Medicine at Mount Sinai
   lab: Cai
   experimenter:
@@ -35,14 +34,34 @@ NWBFile:
     Mice were anaesthetized with 1 to 2% isoflurane for surgical procedures and placed into a stereotaxic frame (David Kopf Instruments). 
     Eye ointment was applied to prevent desiccation, and the mice were kept on a heated pad to prevent hypothermia. 
     Surgery was performed using aseptic technique. After surgery, carprofen (5mg per kg) was administered every day for the following 3 days, 
-    and ampicillin (20mg per kg) was administered every day for the next 7days. 
-    For calcium imaging experiments, dexamethasone (0.2mg per kg) was also administered for the following 7days.
+    and ampicillin (20mg per kg) was administered every day for the next 7days.
+    For calcium imaging experiments with EEG/EMG implants, mice underwent three serial procedures spaced around 2 weeks apart. 
+    During the first surgery, mice had 300 nl of AAV1-Syn-GCaMP6f injected into dorsal CA1 (AP, −2 mm; ML, +1.5 mm; DV, −1.2 mm), 
+    the incision was sutured after the surgery.    
+    Then, 2 weeks later during a second surgery, mice had their overlying cortex aspirated and a GRIN lens was implanted above the injection site. 
+    This involved aspirating the cortex with a 27-gauge blunt syringe needle attached to a vacuum pump, constantly irrigating with cortex buffer. 
+    When the striations of the corpus callosum were visible, a 30-gauge needle replaced the 27-gauge needle for finer-tuned aspiration. 
+    Once most of corpus callosum was removed, bleeding was controlled using surgical foam (Surgifoam), 
+    and a 1 mm diameter x 4 mm length GRIN lens (GRINTECH) was slowly lowered into the craniotomy. 
+    The lens was fixed with cyanoacrylate, and dental acrylic was applied to cement the implant in place and cover the exposed skull. 
+    The top of the exposed lens was covered with Kwik-Sil (World Precision Instruments) and then dental cement.
+    During this same surgery, a wireless telemetry probe (HD-X02, Data Science International) was implanted with EEG and EMG wires. 
+    Two EMG wires were placed into the left trapezius muscle. 
+    One EEG wire was implanted between the skull and dura mater above the dorsal hippocampus on the contralateral hemisphere to the GRIN lens 
+    (left hemisphere; AP, −2 mm; ML, −1.5 mm), and a reference EEG wire was implanted between the skull and the dura on the right hemisphere overlying the prefrontal cortex (AP, +1.75 mm; ML, −0.5 mm). 
+    Cyanoacrylate and dental cement fixed the GRIN lens, anchor screw, and EEG wires in place. 
+    The telemetry probes were implanted during this second surgery to minimize the time mice needed to live with the implant.
+    During the third procedure, the mice were returned to implant the baseplate. 
+    The Miniscope with an attached baseplate was lowered near the implanted lens, with the field of view monitored in real-time on a computer. 
+    The Miniscope was rotated until a well-exposed field of view was observed, at which point the baseplate was fixed to the implant with cyanoacrylate and dental cement.
   virus:
     AAV1-Syn-GCaMP6f was injected into dorsal CA1 of the hippocampus on the right hemisphere (AP, −2 mm; ML, +1.5 mm; DV, −1.2 mm)
 Subject:
   species: Mus musculus
-  age: P12W/P15W  # in ISO 8601, such as "P1W2D"
+  age: P12W/P18W
   sex: M
+  strain: C57BL/6J
+  genotype: wild-type
 Ophys:
   OnePhotonSeries:
     - name: OnePhotonSeries