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Team:Colombia Uniandes/ChimiProject
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[[File:Chimi.jpg|300px|thumb|left|'''Chimi''']] | [[File:Chimi.jpg|300px|thumb|left|'''Chimi''']] | ||
<p align="justify"> | <p align="justify"> | ||
| - | + | In popular jargon, Stress refers to experiences where a sense of control is missing and which are often prolonged, irritating, physically exhausting and sometimes, dangerous (McEwen, 2007). Physiologically, the ‘‘stressor’’ challenges homeostasis and most times result in a cascade of enzymatic events designed to prepare the body to counteract the loss of stability in the internal environment (Morgan et al, 2007). Allostasis, which stands for the active processes involved in maintaining this stability, comprises the release of hormones and other mediators that act as protective mechanisms. Nevertheless, while acute or short-term stress responses are considered adaptive, continuous or long-term exposure to stressors may have potentially damaging effects due to wear and tear on the body and brain. | |
| - | + | ||
| - | + | It is widely accepted that exposure to stressors increases secretion of glucocorticoids, cortisol, and corticosterone in a wide variety of gnathostome vertebrates (Stephens, 1980) (Greenberg et al, 1987). Research in animals, have demonstrated that allostatic overload of this hormones and other mediators, resulting from chronic stress, causes atrophy of neurons in the hippocampus and prefrontal cortex; brain regions involved in memory, selective attention and executive function; likewise it causes hypertrophy of neurons in the amygdala, the brain region involved in fear and anxiety as well as aggression (McEwen, 2004). This means that prolonged states of stress may lead to impaired performance in daily activities like learning, decision making and ability to remember; additionally, will cause damage on the amygdala which in turn will increase levels of anxiety and aggression. | |
| - | + | ||
| - | + | Other than neurological, chronic stress in vertebrates is tightly related with pathologies upon metabolism, immunity, reproduction, cardiovascular system and cellular proliferation (Harbuz et al, 1992) (Whittier, 1991); Thus, the dysregulation of cortisol and other mediators that form the allostatic system is likely to play a role in many neurophysiological conditions as well as systemic disorders such as diabetes, impaired reproduction and immunosuppression (Rasgon et al, 2005). | |
| + | |||
| + | Now a days, approximately 26 billion animals, spanning over 10 000 species, are kept on farms and in zoos, conservation breeding centers, research laboratories and households (Manson, 2010). Taking into account that captivity is a well-known acute stressor (Gregory et al, 1996), if proper conditions of the habitat are not reestablished or defined, acute stress may turn into chronic stress, and consequently lead to problems that are particularly undesirable for animals maintained in captivity; including increased abnormal behavior, increased self-injurious behavior, impaired reproduction and immunosuppression (Morgan et al, 2007). Besides, it’s been demonstrated that stressful conditions on cattle elicit changes in muscle gross morphology in direct proportion with the duration of the stressor, thus a negative effect on the meat quality and other products for human consumption (Judge, 1969). | ||
| + | |||
| + | Likewise, human beings are prone to stressful conditions; Constant exposure to adverse environments like noise and pollution or other lifestyle and social conflicts may cause chronic stress that result, over time, in pathophysiological conditions like atherosclerosis, which can lead to strokes and myocardial infarctions (McEwen, 2007). | ||
| + | |||
| + | Identifying a standardized mechanism that allows an early detection of stress is of high importance in different applications such as animal conservation and human practices such as investigation, medicine, animal breeding and cattle raising. Also, doing the proper characterization of the different types of stress provide insight information about the animal condition and therefore, assist an early diagnosis to prevent acute stress to become chronic. | ||
| + | |||
| + | Nowadays, hormones act as biological markers of stress; In this practices the so called “stress-hormones” such as cortisol in humans and corticosterone in rats are quantified to provide information of stress in animals; Elisa, which is the gold standard for stress determination is highly precise and specific; nevertheless this and most methods that utilize immunoassays are only available for lab practices and involve the manipulation of difficult machinery and specialized procedures that are not available for daily use and which are difficult and expensive to implement in farms, home or other in situ investigations. | ||
| + | |||
| + | We propose a standardized device that’ll detect stress with no need of complex machinery or procedures, but a versatile and easy to use device that can be used by anyone, from a farmer in livestock practices, to yourself at home, to identify if your own pet is held in good conditions and stress-free. The device will sense the presence of one of the “stress hormones”, depending on the specimen used, and compare it to a normal concentration or base line. If the concentration of the hormone sensed is more than usual, the device will send a visual signal to inform the user of the presence of stress. The sensing will be done by a bio-machinery held inside the genetic code of saccharomyces cerevisae. Thus, our genetically manufactured yeast will identify if there’s abnormal presence of the hormone and if the threshold established is reached, elicit the alarm signal using m-cherry. | ||
| + | |||
| + | This project that is aimed to a larger population than the methods previously released, can be used for both formal and informal characterization of stress. In previous examination with members of the laboratory of neuroscience of Andes University, they did recognize the asset of the device to objectively characterize behavior with fewer limitations and costs than with ELISA kit. Besides, interviews with veterinarians provide evidence that the animals held in households and other facilities such as animal breeding centers and farms, often require close observation to avoid negative effects associated with stressed animals. | ||
| + | |||
| + | Although we did recognize that identifying stress in animals is of high important in different fields, we propose to initialize the project with trials on humans mostly because of the vast amount of information on the circadian rhythms and baselines of cortisol [[https://2013.igem.org/Team:Colombia_Uniandes/Implementation (read more here)]], the main “stress hormone” in humans. Nevertheless, we intent to create a product with different final users, based on personalized needs. This requires a bigger effort as baselines for each specimen shall be established in order to identify the “all or nothing” threshold. | ||
| + | |||
| + | Besides, we propose as future prospects, the possibility to implement various baselines in order to provide a more quantitatively response to the presence of stress, rather than the off-on system originally proposed. | ||
| + | |||
| + | |||
| + | |||
| + | |||
<h3 id="parts">Design: Project Parts!</h3> | <h3 id="parts">Design: Project Parts!</h3> | ||
<blockquote> | <blockquote> | ||
Revision as of 22:02, 24 September 2013
Contents
ColombiaSuperProjects!
Our Stress Sensor! Glucocorticoid based
Chimi
In popular jargon, Stress refers to experiences where a sense of control is missing and which are often prolonged, irritating, physically exhausting and sometimes, dangerous (McEwen, 2007). Physiologically, the ‘‘stressor’’ challenges homeostasis and most times result in a cascade of enzymatic events designed to prepare the body to counteract the loss of stability in the internal environment (Morgan et al, 2007). Allostasis, which stands for the active processes involved in maintaining this stability, comprises the release of hormones and other mediators that act as protective mechanisms. Nevertheless, while acute or short-term stress responses are considered adaptive, continuous or long-term exposure to stressors may have potentially damaging effects due to wear and tear on the body and brain.
It is widely accepted that exposure to stressors increases secretion of glucocorticoids, cortisol, and corticosterone in a wide variety of gnathostome vertebrates (Stephens, 1980) (Greenberg et al, 1987). Research in animals, have demonstrated that allostatic overload of this hormones and other mediators, resulting from chronic stress, causes atrophy of neurons in the hippocampus and prefrontal cortex; brain regions involved in memory, selective attention and executive function; likewise it causes hypertrophy of neurons in the amygdala, the brain region involved in fear and anxiety as well as aggression (McEwen, 2004). This means that prolonged states of stress may lead to impaired performance in daily activities like learning, decision making and ability to remember; additionally, will cause damage on the amygdala which in turn will increase levels of anxiety and aggression.
Other than neurological, chronic stress in vertebrates is tightly related with pathologies upon metabolism, immunity, reproduction, cardiovascular system and cellular proliferation (Harbuz et al, 1992) (Whittier, 1991); Thus, the dysregulation of cortisol and other mediators that form the allostatic system is likely to play a role in many neurophysiological conditions as well as systemic disorders such as diabetes, impaired reproduction and immunosuppression (Rasgon et al, 2005).
Now a days, approximately 26 billion animals, spanning over 10 000 species, are kept on farms and in zoos, conservation breeding centers, research laboratories and households (Manson, 2010). Taking into account that captivity is a well-known acute stressor (Gregory et al, 1996), if proper conditions of the habitat are not reestablished or defined, acute stress may turn into chronic stress, and consequently lead to problems that are particularly undesirable for animals maintained in captivity; including increased abnormal behavior, increased self-injurious behavior, impaired reproduction and immunosuppression (Morgan et al, 2007). Besides, it’s been demonstrated that stressful conditions on cattle elicit changes in muscle gross morphology in direct proportion with the duration of the stressor, thus a negative effect on the meat quality and other products for human consumption (Judge, 1969).
Likewise, human beings are prone to stressful conditions; Constant exposure to adverse environments like noise and pollution or other lifestyle and social conflicts may cause chronic stress that result, over time, in pathophysiological conditions like atherosclerosis, which can lead to strokes and myocardial infarctions (McEwen, 2007).
Identifying a standardized mechanism that allows an early detection of stress is of high importance in different applications such as animal conservation and human practices such as investigation, medicine, animal breeding and cattle raising. Also, doing the proper characterization of the different types of stress provide insight information about the animal condition and therefore, assist an early diagnosis to prevent acute stress to become chronic.
Nowadays, hormones act as biological markers of stress; In this practices the so called “stress-hormones” such as cortisol in humans and corticosterone in rats are quantified to provide information of stress in animals; Elisa, which is the gold standard for stress determination is highly precise and specific; nevertheless this and most methods that utilize immunoassays are only available for lab practices and involve the manipulation of difficult machinery and specialized procedures that are not available for daily use and which are difficult and expensive to implement in farms, home or other in situ investigations.
We propose a standardized device that’ll detect stress with no need of complex machinery or procedures, but a versatile and easy to use device that can be used by anyone, from a farmer in livestock practices, to yourself at home, to identify if your own pet is held in good conditions and stress-free. The device will sense the presence of one of the “stress hormones”, depending on the specimen used, and compare it to a normal concentration or base line. If the concentration of the hormone sensed is more than usual, the device will send a visual signal to inform the user of the presence of stress. The sensing will be done by a bio-machinery held inside the genetic code of saccharomyces cerevisae. Thus, our genetically manufactured yeast will identify if there’s abnormal presence of the hormone and if the threshold established is reached, elicit the alarm signal using m-cherry.
This project that is aimed to a larger population than the methods previously released, can be used for both formal and informal characterization of stress. In previous examination with members of the laboratory of neuroscience of Andes University, they did recognize the asset of the device to objectively characterize behavior with fewer limitations and costs than with ELISA kit. Besides, interviews with veterinarians provide evidence that the animals held in households and other facilities such as animal breeding centers and farms, often require close observation to avoid negative effects associated with stressed animals.
Although we did recognize that identifying stress in animals is of high important in different fields, we propose to initialize the project with trials on humans mostly because of the vast amount of information on the circadian rhythms and baselines of cortisol [(read more here)], the main “stress hormone” in humans. Nevertheless, we intent to create a product with different final users, based on personalized needs. This requires a bigger effort as baselines for each specimen shall be established in order to identify the “all or nothing” threshold.
Besides, we propose as future prospects, the possibility to implement various baselines in order to provide a more quantitatively response to the presence of stress, rather than the off-on system originally proposed.
Design: Project Parts!
Glucocorticoid sensor
Our construct
<p align="justify">
We plan to use the baker's yeast, Saccharomyces cerevisiae, as a chassis for a plasmid which will contain a chimeric protein used as a transactivating factor in a biosensor with a colored reporter.
</p>
The Chassis
<p align="justify">
We chose S. cerevisiae as the chassis because one of the most important parts of our fusion protein, the glucocorticoid receptor hormone binding domain (GCR HBD) is eukaryotic, therefore we wanted an easy to use, easy to grow, eucaryotic vector to express our protein and build our biosensor.
</p>
The Chimera
<p align="justify">
The glucocorticoid receptor (GCR) from mammals contains three domains necessary for stress hormone related gene transcription, the hormone binding domain (HBD), the DNA binding domain (DNA-BD) and the gene transactivating domain (GTD).
</p>
<p align="justify">
However, for our construct's performance we used a chimeric protein. Just as the mythological creature made from fused parts from a lion, a goat and a snake, we created a chimeric protein using three domains from different organisms.
</p>
<p align="justify">
We used the glucocorticoid receptor hormone binding domain (GCR HBD) which came from a rat to recognize our hormones of interest. However, we replaced the other two domains with the herpesvirus gene transactivating domain (HV-GTD) and the yeast's DNA binding domain from GAL4. These two new domains have the advantage of being already used, characterized and being highly efficient. The HV-GTD is a highly efficient transactivating domain, recognized to be several orders of magnitude better than the GCR-GTD.
</p>
Tester Construct
Glucocorticoid test construct
Individual Parts Checklist*
pBAP2
Extracted
GAL4
Extracted
VP16
Extracted
GCR
Extracted
Yeast Terminator
In progress
pGAL1
Extracted
mCherry
Extracted
Fusion Checklist*
pBAP2 + GAL4
Fused
VP16 + GCR
Fused
VP16 + GCR + yeast Terminator
Stand by
pBAP2 + GAL4 + VP16 + GCR + yeast Terminator
Stand by
pGAL1 + mCherry
Fused
*Updated as of July 27.
Contents |
ColombiaSuperProjects!
Our Stress Sensor! Glucocorticoid based
In popular jargon, Stress refers to experiences where a sense of control is missing and which are often prolonged, irritating, physically exhausting and sometimes, dangerous (McEwen, 2007). Physiologically, the ‘‘stressor’’ challenges homeostasis and most times result in a cascade of enzymatic events designed to prepare the body to counteract the loss of stability in the internal environment (Morgan et al, 2007). Allostasis, which stands for the active processes involved in maintaining this stability, comprises the release of hormones and other mediators that act as protective mechanisms. Nevertheless, while acute or short-term stress responses are considered adaptive, continuous or long-term exposure to stressors may have potentially damaging effects due to wear and tear on the body and brain. It is widely accepted that exposure to stressors increases secretion of glucocorticoids, cortisol, and corticosterone in a wide variety of gnathostome vertebrates (Stephens, 1980) (Greenberg et al, 1987). Research in animals, have demonstrated that allostatic overload of this hormones and other mediators, resulting from chronic stress, causes atrophy of neurons in the hippocampus and prefrontal cortex; brain regions involved in memory, selective attention and executive function; likewise it causes hypertrophy of neurons in the amygdala, the brain region involved in fear and anxiety as well as aggression (McEwen, 2004). This means that prolonged states of stress may lead to impaired performance in daily activities like learning, decision making and ability to remember; additionally, will cause damage on the amygdala which in turn will increase levels of anxiety and aggression. Other than neurological, chronic stress in vertebrates is tightly related with pathologies upon metabolism, immunity, reproduction, cardiovascular system and cellular proliferation (Harbuz et al, 1992) (Whittier, 1991); Thus, the dysregulation of cortisol and other mediators that form the allostatic system is likely to play a role in many neurophysiological conditions as well as systemic disorders such as diabetes, impaired reproduction and immunosuppression (Rasgon et al, 2005). Now a days, approximately 26 billion animals, spanning over 10 000 species, are kept on farms and in zoos, conservation breeding centers, research laboratories and households (Manson, 2010). Taking into account that captivity is a well-known acute stressor (Gregory et al, 1996), if proper conditions of the habitat are not reestablished or defined, acute stress may turn into chronic stress, and consequently lead to problems that are particularly undesirable for animals maintained in captivity; including increased abnormal behavior, increased self-injurious behavior, impaired reproduction and immunosuppression (Morgan et al, 2007). Besides, it’s been demonstrated that stressful conditions on cattle elicit changes in muscle gross morphology in direct proportion with the duration of the stressor, thus a negative effect on the meat quality and other products for human consumption (Judge, 1969). Likewise, human beings are prone to stressful conditions; Constant exposure to adverse environments like noise and pollution or other lifestyle and social conflicts may cause chronic stress that result, over time, in pathophysiological conditions like atherosclerosis, which can lead to strokes and myocardial infarctions (McEwen, 2007). Identifying a standardized mechanism that allows an early detection of stress is of high importance in different applications such as animal conservation and human practices such as investigation, medicine, animal breeding and cattle raising. Also, doing the proper characterization of the different types of stress provide insight information about the animal condition and therefore, assist an early diagnosis to prevent acute stress to become chronic. Nowadays, hormones act as biological markers of stress; In this practices the so called “stress-hormones” such as cortisol in humans and corticosterone in rats are quantified to provide information of stress in animals; Elisa, which is the gold standard for stress determination is highly precise and specific; nevertheless this and most methods that utilize immunoassays are only available for lab practices and involve the manipulation of difficult machinery and specialized procedures that are not available for daily use and which are difficult and expensive to implement in farms, home or other in situ investigations. We propose a standardized device that’ll detect stress with no need of complex machinery or procedures, but a versatile and easy to use device that can be used by anyone, from a farmer in livestock practices, to yourself at home, to identify if your own pet is held in good conditions and stress-free. The device will sense the presence of one of the “stress hormones”, depending on the specimen used, and compare it to a normal concentration or base line. If the concentration of the hormone sensed is more than usual, the device will send a visual signal to inform the user of the presence of stress. The sensing will be done by a bio-machinery held inside the genetic code of saccharomyces cerevisae. Thus, our genetically manufactured yeast will identify if there’s abnormal presence of the hormone and if the threshold established is reached, elicit the alarm signal using m-cherry. This project that is aimed to a larger population than the methods previously released, can be used for both formal and informal characterization of stress. In previous examination with members of the laboratory of neuroscience of Andes University, they did recognize the asset of the device to objectively characterize behavior with fewer limitations and costs than with ELISA kit. Besides, interviews with veterinarians provide evidence that the animals held in households and other facilities such as animal breeding centers and farms, often require close observation to avoid negative effects associated with stressed animals. Although we did recognize that identifying stress in animals is of high important in different fields, we propose to initialize the project with trials on humans mostly because of the vast amount of information on the circadian rhythms and baselines of cortisol [(read more here)], the main “stress hormone” in humans. Nevertheless, we intent to create a product with different final users, based on personalized needs. This requires a bigger effort as baselines for each specimen shall be established in order to identify the “all or nothing” threshold. Besides, we propose as future prospects, the possibility to implement various baselines in order to provide a more quantitatively response to the presence of stress, rather than the off-on system originally proposed.
Design: Project Parts!
Glucocorticoid sensor
Our construct
<p align="justify"> We plan to use the baker's yeast, Saccharomyces cerevisiae, as a chassis for a plasmid which will contain a chimeric protein used as a transactivating factor in a biosensor with a colored reporter. </p>
The Chassis
<p align="justify"> We chose S. cerevisiae as the chassis because one of the most important parts of our fusion protein, the glucocorticoid receptor hormone binding domain (GCR HBD) is eukaryotic, therefore we wanted an easy to use, easy to grow, eucaryotic vector to express our protein and build our biosensor. </p>
The Chimera
<p align="justify"> The glucocorticoid receptor (GCR) from mammals contains three domains necessary for stress hormone related gene transcription, the hormone binding domain (HBD), the DNA binding domain (DNA-BD) and the gene transactivating domain (GTD). </p> <p align="justify"> However, for our construct's performance we used a chimeric protein. Just as the mythological creature made from fused parts from a lion, a goat and a snake, we created a chimeric protein using three domains from different organisms. </p> <p align="justify"> We used the glucocorticoid receptor hormone binding domain (GCR HBD) which came from a rat to recognize our hormones of interest. However, we replaced the other two domains with the herpesvirus gene transactivating domain (HV-GTD) and the yeast's DNA binding domain from GAL4. These two new domains have the advantage of being already used, characterized and being highly efficient. The HV-GTD is a highly efficient transactivating domain, recognized to be several orders of magnitude better than the GCR-GTD. </p>
Tester Construct
Glucocorticoid test construct
Individual Parts Checklist* pBAP2 Extracted GAL4 Extracted VP16 Extracted GCR Extracted Yeast Terminator In progress pGAL1 Extracted mCherry Extracted
Fusion Checklist* pBAP2 + GAL4 Fused VP16 + GCR Fused VP16 + GCR + yeast Terminator Stand by pBAP2 + GAL4 + VP16 + GCR + yeast Terminator Stand by pGAL1 + mCherry Fused *Updated as of July 27.
