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  • 1
    In: The Journal of Neuroscience, Society for Neuroscience, Vol. 40, No. 43 ( 2020-10-21), p. 8329-8342
    Abstract: Hippocampal CA1 place cell spatial maps are known to alter their firing properties in response to contextual fear conditioning, a process called “remapping.” In the present study, we use chronic calcium imaging to examine remapping during fear retrieval and extinction of an inhibitory avoidance task in mice of both sexes over an extended period of time and with thousands of neurons. We demonstrate that hippocampal ensembles encode space at a finer scale following fear memory acquisition. This effect is strongest near the shock grid. We also characterize the long-term effects of shock on place cell ensemble stability, demonstrating that shock delivery induces several days of high fear and low between-session place field stability, followed by a new, stable spatial representation that appears after fear extinction. Finally, we identify a novel group of CA1 neurons that robustly encode freeze behavior independently from spatial location. Thus, following fear acquisition, hippocampal CA1 place cells sharpen their spatial tuning and dynamically change spatial encoding stability throughout fear learning and extinction. SIGNIFICANCE STATEMENT The hippocampus contains place cells that encode an animal's location. This spatial code updates, or remaps, in response to environmental change. It is known that contextual fear can induce such remapping; in the present study, we use chronic calcium imaging to examine inhibitory avoidance-induced remapping over an extended period of time and with thousands of neurons and demonstrate that hippocampal ensembles encode space at a finer scale following electric shock, an effect which is enhanced by threat proximity. We also identify a novel group of freeze behavior-activated neurons. These results suggest that, more than merely shuffling their spatial code following threat exposure, place cells enhance their spatial coding with the possible benefit of improved threat localization.
    Type of Medium: Online Resource
    ISSN: 0270-6474 , 1529-2401
    Language: English
    Publisher: Society for Neuroscience
    Publication Date: 2020
    detail.hit.zdb_id: 1475274-8
    SSG: 12
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  • 2
    Online Resource
    Online Resource
    Society for Neuroscience ; 2020
    In:  The Journal of Neuroscience Vol. 40, No. 29 ( 2020-07-15), p. 5628-5643
    In: The Journal of Neuroscience, Society for Neuroscience, Vol. 40, No. 29 ( 2020-07-15), p. 5628-5643
    Type of Medium: Online Resource
    ISSN: 0270-6474 , 1529-2401
    Language: English
    Publisher: Society for Neuroscience
    Publication Date: 2020
    detail.hit.zdb_id: 1475274-8
    SSG: 12
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  • 3
    In: eLife, eLife Sciences Publications, Ltd, Vol. 12 ( 2023-01-24)
    Abstract: Epifluorescence miniature microscopes (‘miniscopes’) are widely used for in vivo calcium imaging of neural population activity. Imaging data are typically collected during a behavioral task and stored for later offline analysis, but emerging techniques for online imaging can support novel closed-loop experiments in which neural population activity is decoded in real time to trigger neurostimulation or sensory feedback. To achieve short feedback latencies, online imaging systems must be optimally designed to maximize computational speed and efficiency while minimizing errors in population decoding. Here we introduce DeCalciOn , an open-source device for real-time imaging and population decoding of in vivo calcium signals that is hardware compatible with all miniscopes that use the UCLA Data Acquisition (DAQ) interface. DeCalciOn performs online motion stabilization, neural enhancement, calcium trace extraction, and decoding of up to 1024 traces per frame at latencies of 〈 50 ms after fluorescence photons arrive at the miniscope image sensor. We show that DeCalciOn can accurately decode the position of rats ( n = 12) running on a linear track from calcium fluorescence in the hippocampal CA1 layer, and can categorically classify behaviors performed by rats ( n = 2) during an instrumental task from calcium fluorescence in orbitofrontal cortex. DeCalciOn achieves high decoding accuracy at short latencies using innovations such as field-programmable gate array hardware for real-time image processing and contour-free methods to efficiently extract calcium traces from sensor images. In summary, our system offers an affordable plug-and-play solution for real-time calcium imaging experiments in behaving animals.
    Type of Medium: Online Resource
    ISSN: 2050-084X
    Language: English
    Publisher: eLife Sciences Publications, Ltd
    Publication Date: 2023
    detail.hit.zdb_id: 2687154-3
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  • 4
    In: eLife, eLife Sciences Publications, Ltd, Vol. 12 ( 2023-07-19)
    Abstract: The human brain is able to remember experiences that occurred at specific places and times, such as a birthday party held at a particular restaurant. A part of the brain known as the hippocampus helps to store these episodic memories, but how exactly is not fully understood. Within the hippocampus are specialized neurons known as place cells which ‘label’ locations with unique patterns of brain activity. When we revisit a place, such as the restaurant, place cells recall the stored pattern of brain activity allowing us to recognize the familiar location. It has been shown that a new negative experience at a familiar place – for example, if we went back to the restaurant and had a terrible meal – triggers place cells to update the brain activity label associated with the location. However, it remains uncertain whether this re-labelling assists in storing the memory of the unpleasant experience. To investigate, Blair et al. used a technique known as calcium imaging to monitor place cells in the hippocampus of freely moving rats. The rats were given a new experience – a mild foot shock – at a previously explored location. Tiny cameras attached to their heads were then used to record the activity of hundreds of place cells before and after the shock. Initially, the rats remembered the aversive experience and avoided the location where they had been shocked. Over time, the rats began to return to the location; however, their place cells displayed different patterns of activity compared to their previous visits before the shock. To test whether this change in place cell activity corresponded with new memories, another group of rats were administered a mild amnesia-inducing drug before the shock, causing them to forget the experience. These rats did not avoid the shock site or show any changes in place cell activity when they revisited it. These findings imply that new events cause place cells to alter their ‘label’ for a location only if the event is remembered, not if it is forgotten. This indicates that alterations in place cell activity patterns may play a role in storing memories of unpleasant experiences. Having a better understanding of how episodic memories are stored could lead to better treatments for diseases that impair memory, such as Alzheimer’s disease and age-related dementia.
    Type of Medium: Online Resource
    ISSN: 2050-084X
    Language: English
    Publisher: eLife Sciences Publications, Ltd
    Publication Date: 2023
    detail.hit.zdb_id: 2687154-3
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  • 5
    Online Resource
    Online Resource
    Institute of Electrical and Electronics Engineers (IEEE) ; 2023
    In:  IEEE Transactions on Biomedical Circuits and Systems Vol. 17, No. 2 ( 2023-4), p. 169-179
    In: IEEE Transactions on Biomedical Circuits and Systems, Institute of Electrical and Electronics Engineers (IEEE), Vol. 17, No. 2 ( 2023-4), p. 169-179
    Type of Medium: Online Resource
    ISSN: 1932-4545 , 1940-9990
    Language: Unknown
    Publisher: Institute of Electrical and Electronics Engineers (IEEE)
    Publication Date: 2023
    detail.hit.zdb_id: 2260089-9
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  • 6
    In: Animals, MDPI AG, Vol. 11, No. 3 ( 2021-03-19), p. 884-
    Abstract: The experiment aimed to examine the impacts of an increased growth rate of ewes between three and seven months of age on udder development using ultrasound and to establish whether ultrasonography could be used to identify ewe mammary structures that may be indirect indicators of singleton growth to weaning. Udder dimensions, depths of gland cistern (GC), parenchyma (PAR) and fat pad (FP) were measured in late pregnancy (P107), early lactation (L29), and at weaning (L100) in 59 single-bearing yearling ewes selected from two treatments. The ‘heavy’ group (n = 31) was preferentially fed prior to breeding achieving an average breeding live-weight of 47.9 ± 0.38 kg at seven months of age. The ‘control’ group (n = 28) had an average breeding live-weight of 44.9 ± 0.49 kg. Udder dimensions, GC, PAR and FP did not differ between treatments. Lamb growth to L100 was positively associated (p 〈 0.05) with PAR at P107 and GC at L29. There was no evidence of negative effects of the live-weight gain treatments on udder development of yearling ewes as measured by ultrasonography. The results suggest that this ultrasound method has the potential to identify pregnant yearling ewes which would wean heavier singletons.
    Type of Medium: Online Resource
    ISSN: 2076-2615
    Language: English
    Publisher: MDPI AG
    Publication Date: 2021
    detail.hit.zdb_id: 2606558-7
    SSG: 23
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  • 7
    In: New Zealand Journal of Agricultural Research, Informa UK Limited, Vol. 65, No. 2-3 ( 2022-05-04), p. 129-144
    Type of Medium: Online Resource
    ISSN: 0028-8233 , 1175-8775
    Language: English
    Publisher: Informa UK Limited
    Publication Date: 2022
    detail.hit.zdb_id: 2098793-6
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  • 8
    In: Agriculture, MDPI AG, Vol. 11, No. 9 ( 2021-09-05), p. 849-
    Abstract: In New Zealand, surplus dairy-origin calves not needed as replacement or for beef cattle farms requirements for finishing are commercially slaughtered within two weeks of age. This system has perceived ethical issues which can potentially negatively affect the dairy industry. Therefore, a young beef cattle production system to maximize the use of excess calves within the land size constraint is considered as an alternative to a traditional 18 to 33-months slaughtering system. The current study examined the effects of young beef cattle production with slaughter ages at 8 to 14 months on pasture utilization, farm profitability and selling policy on class 5, intensive finishing sheep and beef cattle farms in New Zealand. A linear programming model that had previously been developed for this farm class (optimized traditional beef cattle system) was modified to include a young beef cattle slaughter system and identified the carrying capacity for young and traditional beef cattle and the selling policy required to optimize pasture utilization and farm profitability. Systems with young beef cattle slaughtered at 8, 10, 12 or 14-months of age were simulated without (Scenario I) or with (Scenario II) decreasing the number of traditional beef cattle. Daily per head energy demand for maintenance and live weight change was estimated and converted to kg DM/head on a bimonthly basis. Carcasses from young beef cattle were processed as one class under manufacturing beef price (NZ$4.50). The modified young and traditional beef cattle slaughtering system maintained an extra 6% and 35% beef cattle in Scenario I and Scenario II respectively, and finished 90% and 84% of traditional beef cattle before the second winter. Pasture supplied 98% of the feed demand for the beef cattle activities and 79–83% of that was consumed. Mixed young and traditional beef cattle finishing scenarios returned 2% less gross farm revenue per hectare (GFR/ha). However, earnings before tax per hectare (ETB/ha) in Scenario I and Scenario II were 15–25% greater than that of the optimized traditional beef cattle system, respectively. Young beef cattle production increased pasture utilization and farm profitability and increased selling options for finished beef cattle. Therefore, the young beef cattle system is a viable option for farmers and will help to reduce the need to slaughter calves within two weeks of age.
    Type of Medium: Online Resource
    ISSN: 2077-0472
    Language: English
    Publisher: MDPI AG
    Publication Date: 2021
    detail.hit.zdb_id: 2651678-0
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  • 9
    In: Agriculture, MDPI AG, Vol. 12, No. 10 ( 2022-10-05), p. 1615-
    Abstract: Agent-based modeling (ABM) enables an in silico representation of complex systems and captures agent behavior resulting from interaction with other agents and their environment. This study developed an ABM to represent a pasture-based beef cattle finishing systems in New Zealand (NZ) using attributes of the rearer, finisher, and processor, as well as specific attributes of dairy-origin beef cattle. The model was parameterized using values representing 1% of NZ dairy-origin cattle, and 10% of rearers and finishers in NZ. The cattle agent consisted of 32% Holstein-Friesian, 50% Holstein-Friesian–Jersey crossbred, and 8% Jersey, with the remainder being other breeds. Rearers and finishers repetitively and simultaneously interacted to determine the type and number of cattle populating the finishing system. Rearers brought in four-day-old spring-born calves and reared them until 60 calves (representing a full truck load) on average had a live weight of 100 kg before selling them on to finishers. Finishers mainly attained weaners from rearers, or directly from dairy farmers when weaner demand was higher than the supply from rearers. Fast-growing cattle were sent for slaughter before the second winter, and the remainder were sent before their third winter. The model finished a higher number of bulls than heifers and steers, although it was 4% lower than the industry reported value. Holstein-Friesian and Holstein-Friesian–Jersey-crossbred cattle dominated the dairy-origin beef finishing system. Jersey cattle account for less than 5% of total processed beef cattle. Further studies to include retailer and consumer perspectives and other decision alternatives for finishing farms would improve the applicability of the model for decision-making processes.
    Type of Medium: Online Resource
    ISSN: 2077-0472
    Language: English
    Publisher: MDPI AG
    Publication Date: 2022
    detail.hit.zdb_id: 2651678-0
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  • 10
    In: Translational Animal Science, Oxford University Press (OUP), Vol. 5, No. 3 ( 2021-07-01)
    Abstract: The relationship between ewe body condition score (BCS) and liveweight (LW) has been exploited previously to predict the former from LW, LW-change, and previous BCS records. It was hypothesized that if fleece weight and conceptus-free liveweight and LW-change, and in addition, height at withers were used, the accuracy of current approaches to predicting BCS would be enhanced. Ewes born in 2017 (n = 429) were followed from 8 mo to approximately 42 mo of age in New Zealand. Individual ewe data were collected on LW and BCS at different stages of the annual production cycle (i.e., prebreeding, at pregnancy diagnosis, prelambing, and weaning). Additionally, individual lambing dates, ewe fleece weight, and height at withers data were collected. Linear regression models were fitted to predict current BCS at each ewe age and stage of the annual production cycle using two LW-based models, namely, unadjusted for conceptus weight and fleece weight (LW alone1) and adjusted (LW alone2) models. Furthermore, another two models based on a combination of LW, LW-change, previous BCS, and height at withers (combined models), namely, unadjusted (combined1) and adjusted for conceptus and fleece weight (combined2), were fitted. Combined models gave more accurate (with lower root mean square error: RMSE) BCS predictions than models based on LW records alone. However, applying adjusted models did not improve BCS prediction accuracy (or reduce RMSE) or improve model goodness of fit (R2) (P & gt; 0.05). Furthermore, in all models, both LW-alone and combined models, a great proportion of variability in BCS, could not be accounted for (0.25 ≥ R2 ≥ 0.83) and there was substantial prediction error (0.33 BCS ≥ RMSE ≥ 0.49 BCS) across age groups and stages of the annual production cycle and over time (years). Therefore, using additional ewe data which allowed for the correction of LW for fleece and conceptus weight and using height at withers as an additional predictor did not improve model accuracy. In fact, the findings suggest that adjusting LW data for conceptus and fleece weight offer no additional value to the BCS prediction models based on LW. Therefore, additional research to identify alternative methodologies to account for individual animal variability is still needed.
    Type of Medium: Online Resource
    ISSN: 2573-2102
    Language: English
    Publisher: Oxford University Press (OUP)
    Publication Date: 2021
    detail.hit.zdb_id: 2880940-3
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