Difference between revisions of "Part:BBa K3991007"

Revision as of 07:59, 12 October 2021 (view source) Registry (Talk | contribs)		Latest revision as of 13:03, 19 October 2021 (view source) Hsd1202 (Talk | contribs)
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	<partinfo>BBa_K3991007 short</partinfo>		<partinfo>BBa_K3991007 short</partinfo>
−	pro-ArsR-amilGFP	+
		+	== Profile ==
		+	==== BBa_K3991007 ====
		+	==== Name: pro-ArsR-amilGFP ====
		+	==== Base Pairs: 1178 bp ====
		+	==== Origin: Escherichia coli str. K-12 substr. MG1655 ====
		+	==== Properties: Gene technology for protecting patented bacterial strains ====
		+
		+	== Usage and Biology ==
		+	According to the WHO, arsenic levels above 10 parts per billion in water are harmful to humans. Levels in Bangladesh, however, are five times as much. The Bangladesh arsenic contamination is pending a solution. "I have no alternative." Uddin, a villager in Bangladesh, helplessly expresses his views towards drinking arsenic-contaminated well water.
		+
		+	What comes to your mind first when talking about arsenic? Arsenic is a naturally occurring element that is widely distributed in the earth's crust. It is found in water, air, food, and soil. In recent years, reports of arsenic poisoning have been increasing year by year.
		+
		+	Arsenic seeps into groundwater through rocks and soil, resulting in drinking water from surface sources (such as wells) that often contain higher levels of arsenic than water from, for example, lakes or reservoirs. In addition to groundwater, arsenic levels of 1.7 μg/L have been detected in the ocean, far exceeding the international regulation of 0.0175 μg/L (Neff, 2009). Irrigation with arsenic-contaminated water sources makes arsenic hazardous to human health from the food side. In addition, arsenic can also enter the human body from external sources, such as paints, textiles, and metal adhesives, through direct ingestion, gaseous inhalation, or skin absorptio. Or it can be absorbed by humans as a component of tobacco (WHO, 2018). Long-term exposure to high levels of arsenic can be harmful to humans, especially to developing infants and children. Although arsenic is not well understood, once it enters the body, the skin and various systems such as the nervous, respiratory, cardiopulmonary, immune, and endocrine systems are affected. In addition, the liver, kidneys, bladder, and prostate, which are responsible for detoxification, are damaged and cannot function effectively (National Institute of Environment Health Science, 2021).
		+
		+	For example, in a village in Hunan, China, 1200 in total 3000 residents have been tested for arsenic poisoning, which was mainly caused by the mining of realgar ore. According to the local hospital, 400 of 600 miners who have been tested for arsenic poisoning died from cancer. For instance, a family of 7 people all died from cancer, and 5 of the cases were determined that they were caused by arsenic poisoning (Chinese Center for Disease Control and Prevention, 2014).
		+
		+	Not only for humans but excessive levels of arsenic can also affect plants and animals in the natural environment. For example, aquatic plants (e.g. algae), zooplankton, and amphibians, or aquatic animals (e.g. snails, fish, crustacean larvae, marine mammals) are all exposed to inorganic arsenic toxicity (Neff, 2009).
		+
		+	Arsenic is a microelement that is omnipresent in the environment. However, it is this common microelement that could be harmful to human body. If we take in more than 50 µg/L of arsenic, the function of our body will be disrupted. Also, the level of arsenic throughout the world is gradually increasing every year, and has already exceeded the level that human body can metabolize.
		+
		+	Areas close to factories whose product involves arsenic usually have a high arsenic concentration. Thus, we need arsenic detectors to ensure the security of people who work in these factories. According to the questionnaires and street research we did, although the general public did not know much about arsenic, most people believed that having an inexpensive and accurate sensor to detect arsenic is necessary. In addition, environmental and market scientists also considered that the current testing methods in the market are too cumbersome, so equipment that can detect arsenic levels easily and efficiently is required.
		+
		+	== Construct design ==
		+	[[File:T--Shanghai United--BBa K3991007-figure1.jpg|500px|thumb|center|Figure 1. Plasmid diagram..]]
		+
		+	== BBa_K3991001 ==
		+	==== Name: ArsR ====
		+	==== Base Pairs: 1178 bp ====
		+	==== Origin: Escherichia coli str. K-12 substr. MG1655 ====
		+	==== Properties: Gene technology for protecting patented bacterial strains ====
		+
		+	ArsR negatively controls the expression of the genes involved in arsenical and antimonite metals resistance whose expression is induced in the presence of heavy metals ，which is a trans-acting regulatory protein which controls its own expression. The repressive effect of ArsR is alleviated by oxyions of +III oxidation state of arsenic, antimony, and bismuth, as well as arsenate (As(V)).
		+
		+	== BBa_K592010 ==
		+	==== Name: amilGFP ====
		+	==== Base Pairs: 699bp ====
		+	==== Origin: Acropora millepora ====
		+	==== Properties: A yellow chromoprotein ====
		+
		+	==== Usage and Biology ====
		+	This part is useful as a reporter and it naturally exhibits strong yellow color when expressed.
		+
		+	In the process of cultivating microorganisms, namely Escherichia coli, because of their small size, they cannot be directly observed with the naked eye, and a certain method is needed for monitoring. In cell biology and molecular biology, the green fluorescent protein (GFP) gene is often used as a reporter gene. Through genetic engineering technology, the green fluorescent protein (GFP) gene can be transferred into the genomes of different species and continue to be expressed in offspring. . Therefore, we constructed the amilGFP engineered bacteria to show the growth status (number and vitality) of E. coli by observing the strength of the green fluorescent protein signal.
		+
		+	== Experimental approach ==
		+	==== Production, purification, and sequcing analysis of recombinant ArsR-amilGFP ====
		+	[[File:T--Shanghai United--BBa K3991006-figure2.jpg|500px|thumb|center|Figure 2: Gel Electrophoresis Results of PCR of amilGFP Genes..]]
		+	Figure 1 shows gel electrophoresis results of amilGFP PCR. Column M is a 2K marker ladder. Columns 1-6 are PCR products of amilGFP genes.
		+
		+	All 1-6 columns displayed successful results at 700bp which could be used for later experiments.
		+
		+	[[File:T--Shanghai United--BBa K3991007-figure3.jpg|500px|thumb|center|Figure 3: Gel Electrophoresis Results of PCR of ArsR Genes..]]
		+	Figures3 show the result for colony PCR identification on the E.coli with ArsR
		+	inserted that were cultivated previously. The purpose is to examine whether the E.coli contains expected gene segment of ARSR.
		+	[[File:T--Shanghai United--BBa K3991007-figure4.jpg|500px|thumb|center|..]]
		+
		+	== References ==
		+	==== (1)Neff, J.M. (1997). ECOTOXICOLOGY OF ARSENIC IN THE MARINE ENVIRONMENT—Review. Environmental Toxicology and Chemistry, 16(5), p.917. ====
		+	==== (2)Chinese Center For Disease Control and Prevention (2014). 中国疾病预防控制中心. [online] www.chinacdc.cn. ====
		+	==== (3)Ahmad, S. A., Khan, M. H., & Haque, M. (2018, November 30). Arsenic contamination in groundwater in Bangladesh: Implications and challenges for healthcare policy. Risk management and healthcare policy. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6281155/. ====
		+	==== (4)Argos, M. (2012, December 1). Arsenic and human health: epidemiologic progress and public health implications. De Gruyter. https://www.degruyter.com/document/doi/10.1515/reveh-2012-0021/html ====
		+	==== (5)Arsenic. (2021, May 3). National Institute of Environmental Health Sciences. https://www.niehs.nih.gov/health/topics/agents/arsenic/index.cfm ====
		+	==== (6)Institute, E. (2020, May 6). Clay layers and Distant PUMPING Trigger arsenic contamination in Bangladesh Groundwater. State of the Planet. https://news.climate.columbia.edu/2020/05/07/clay-arsenic-bangladesh-groundwater/. ====
		+	==== (7)International Agency for Research on Cancer. (2012). Review of Human Carcinogens: C. Metals, Arsenic, Dusts and Fibres (IARC Monographs on the Evaluation of the Carcinogenic Risks to Humans, 100) (Vol. 100C). World Health Organization. https://publications.iarc.fr/120 ====
		+	==== (8)Matta, G. (2016, June). 2015 - 2016_Mercury, lead and arsenic impact on environment and human health.pdf. Academia.Edu. https://www.academia.edu/38166988/2015_2016_Mercury_lead_and_arsenic_impact_on_environment_and_human_health_pdf ====
		+	==== (9)Saha, J. C., Dikshit, A. K., Bandyopadhyay, M. A., & Saha, K. C. (1999, July 1). A Review of Arsenic Poisoning and its Effects on Human Health. ResearchGate. https://www.researchgate.net/publication/248944528_A_Review_of_Arsenic_Poisoning_and_its_Effects_on_Human_Health ====
		+	==== (10)SUI Jiachen, YU Hansong, DAI jiayu, et al. Advances in the application of biosensor technology for the detection of heavy metal arsenic in foods[J]. Food Science, 2016, 37(7): 233-238. DOI:10.7506/spkx1002-6630-201607042. http://www.spkx.net.cn ====
		+	==== (11)Shaji, E., Santosh, M., Sarath, K., Prakash, P., Deepchand, V., & Divya, B. (2021). Arsenic contamination of groundwater: A global synopsis with focus on the Indian Peninsula. Geoscience Frontiers, 12(3). https://doi.org/10.1016/j.gsf.2020.08.015 ====
		+	==== (12)The American Cancer Society medical and editorial content team. (2020, August 5). Arsenic and Cancer Risk. American Cancer Society. https://www.cancer.org/cancer/cancer-causes/arsenic.html ====
		+	==== (13)Undark Magazine. (2019, December 20). The Poisoning of Bangladesh: How Arsenic Is Ravaging a Nation. https://undark.org/2017/08/16/bangladesh-arsenic-poisoning-drinking-water/ ====
		+	==== (14)Yogarajah, N., & Tsai, S. S. H. (2015, May 1). Detection of trace arsenic in drinking water: challenges and opportunities for microfluidics - Environmental Science: Water Research & Technology (RSC Publishing) DOI:10.1039/C5EW00099H. Royal Society of Chemistry. https://pubs.rsc.org/en/content/articlehtml/2015/ew/c5ew00099h ====
		+	==== (15)Arsenic W.H.O. World Health Organization. February. 2018. [Accessed August 3, 2018]. Available from: http://www.who.int/news-room/fact-sheets/detail/arsenic. ====
		+
		+
		+
	<!-- Add more about the biology of this part here		<!-- Add more about the biology of this part here

---

Latest revision as of 13:03, 19 October 2021

pro-ArsR-amilGFP

Profile

BBa_K3991007

Name: pro-ArsR-amilGFP

Base Pairs: 1178 bp

Origin: Escherichia coli str. K-12 substr. MG1655

Properties: Gene technology for protecting patented bacterial strains

Usage and Biology

According to the WHO, arsenic levels above 10 parts per billion in water are harmful to humans. Levels in Bangladesh, however, are five times as much. The Bangladesh arsenic contamination is pending a solution. "I have no alternative." Uddin, a villager in Bangladesh, helplessly expresses his views towards drinking arsenic-contaminated well water.

What comes to your mind first when talking about arsenic? Arsenic is a naturally occurring element that is widely distributed in the earth's crust. It is found in water, air, food, and soil. In recent years, reports of arsenic poisoning have been increasing year by year.

Arsenic seeps into groundwater through rocks and soil, resulting in drinking water from surface sources (such as wells) that often contain higher levels of arsenic than water from, for example, lakes or reservoirs. In addition to groundwater, arsenic levels of 1.7 μg/L have been detected in the ocean, far exceeding the international regulation of 0.0175 μg/L (Neff, 2009). Irrigation with arsenic-contaminated water sources makes arsenic hazardous to human health from the food side. In addition, arsenic can also enter the human body from external sources, such as paints, textiles, and metal adhesives, through direct ingestion, gaseous inhalation, or skin absorptio. Or it can be absorbed by humans as a component of tobacco (WHO, 2018). Long-term exposure to high levels of arsenic can be harmful to humans, especially to developing infants and children. Although arsenic is not well understood, once it enters the body, the skin and various systems such as the nervous, respiratory, cardiopulmonary, immune, and endocrine systems are affected. In addition, the liver, kidneys, bladder, and prostate, which are responsible for detoxification, are damaged and cannot function effectively (National Institute of Environment Health Science, 2021).

For example, in a village in Hunan, China, 1200 in total 3000 residents have been tested for arsenic poisoning, which was mainly caused by the mining of realgar ore. According to the local hospital, 400 of 600 miners who have been tested for arsenic poisoning died from cancer. For instance, a family of 7 people all died from cancer, and 5 of the cases were determined that they were caused by arsenic poisoning (Chinese Center for Disease Control and Prevention, 2014).

Not only for humans but excessive levels of arsenic can also affect plants and animals in the natural environment. For example, aquatic plants (e.g. algae), zooplankton, and amphibians, or aquatic animals (e.g. snails, fish, crustacean larvae, marine mammals) are all exposed to inorganic arsenic toxicity (Neff, 2009).

Arsenic is a microelement that is omnipresent in the environment. However, it is this common microelement that could be harmful to human body. If we take in more than 50 µg/L of arsenic, the function of our body will be disrupted. Also, the level of arsenic throughout the world is gradually increasing every year, and has already exceeded the level that human body can metabolize.

Areas close to factories whose product involves arsenic usually have a high arsenic concentration. Thus, we need arsenic detectors to ensure the security of people who work in these factories. According to the questionnaires and street research we did, although the general public did not know much about arsenic, most people believed that having an inexpensive and accurate sensor to detect arsenic is necessary. In addition, environmental and market scientists also considered that the current testing methods in the market are too cumbersome, so equipment that can detect arsenic levels easily and efficiently is required.

Construct design

BBa_K3991001

Name: ArsR

Base Pairs: 1178 bp

Origin: Escherichia coli str. K-12 substr. MG1655

Properties: Gene technology for protecting patented bacterial strains

ArsR negatively controls the expression of the genes involved in arsenical and antimonite metals resistance whose expression is induced in the presence of heavy metals ，which is a trans-acting regulatory protein which controls its own expression. The repressive effect of ArsR is alleviated by oxyions of +III oxidation state of arsenic, antimony, and bismuth, as well as arsenate (As(V)).

BBa_K592010

Name: amilGFP

Base Pairs: 699bp

Origin: Acropora millepora

Properties: A yellow chromoprotein

Usage and Biology

This part is useful as a reporter and it naturally exhibits strong yellow color when expressed.

In the process of cultivating microorganisms, namely Escherichia coli, because of their small size, they cannot be directly observed with the naked eye, and a certain method is needed for monitoring. In cell biology and molecular biology, the green fluorescent protein (GFP) gene is often used as a reporter gene. Through genetic engineering technology, the green fluorescent protein (GFP) gene can be transferred into the genomes of different species and continue to be expressed in offspring. . Therefore, we constructed the amilGFP engineered bacteria to show the growth status (number and vitality) of E. coli by observing the strength of the green fluorescent protein signal.

Experimental approach

Production, purification, and sequcing analysis of recombinant ArsR-amilGFP

Figure 1 shows gel electrophoresis results of amilGFP PCR. Column M is a 2K marker ladder. Columns 1-6 are PCR products of amilGFP genes.

All 1-6 columns displayed successful results at 700bp which could be used for later experiments. 

Figures3 show the result for colony PCR identification on the E.coli with ArsR inserted that were cultivated previously. The purpose is to examine whether the E.coli contains expected gene segment of ARSR.

References

(1)Neff, J.M. (1997). ECOTOXICOLOGY OF ARSENIC IN THE MARINE ENVIRONMENT—Review. Environmental Toxicology and Chemistry, 16(5), p.917.

(2)Chinese Center For Disease Control and Prevention (2014). 中国疾病预防控制中心. [online] www.chinacdc.cn.

(3)Ahmad, S. A., Khan, M. H., & Haque, M. (2018, November 30). Arsenic contamination in groundwater in Bangladesh: Implications and challenges for healthcare policy. Risk management and healthcare policy. https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6281155/.

(4)Argos, M. (2012, December 1). Arsenic and human health: epidemiologic progress and public health implications. De Gruyter. https://www.degruyter.com/document/doi/10.1515/reveh-2012-0021/html

(5)Arsenic. (2021, May 3). National Institute of Environmental Health Sciences. https://www.niehs.nih.gov/health/topics/agents/arsenic/index.cfm

(6)Institute, E. (2020, May 6). Clay layers and Distant PUMPING Trigger arsenic contamination in Bangladesh Groundwater. State of the Planet. https://news.climate.columbia.edu/2020/05/07/clay-arsenic-bangladesh-groundwater/.

(7)International Agency for Research on Cancer. (2012). Review of Human Carcinogens: C. Metals, Arsenic, Dusts and Fibres (IARC Monographs on the Evaluation of the Carcinogenic Risks to Humans, 100) (Vol. 100C). World Health Organization. https://publications.iarc.fr/120

(8)Matta, G. (2016, June). 2015 - 2016_Mercury, lead and arsenic impact on environment and human health.pdf. Academia.Edu. https://www.academia.edu/38166988/2015_2016_Mercury_lead_and_arsenic_impact_on_environment_and_human_health_pdf

(9)Saha, J. C., Dikshit, A. K., Bandyopadhyay, M. A., & Saha, K. C. (1999, July 1). A Review of Arsenic Poisoning and its Effects on Human Health. ResearchGate. https://www.researchgate.net/publication/248944528_A_Review_of_Arsenic_Poisoning_and_its_Effects_on_Human_Health

(10)SUI Jiachen, YU Hansong, DAI jiayu, et al. Advances in the application of biosensor technology for the detection of heavy metal arsenic in foods[J]. Food Science, 2016, 37(7): 233-238. DOI:10.7506/spkx1002-6630-201607042. http://www.spkx.net.cn

(11)Shaji, E., Santosh, M., Sarath, K., Prakash, P., Deepchand, V., & Divya, B. (2021). Arsenic contamination of groundwater: A global synopsis with focus on the Indian Peninsula. Geoscience Frontiers, 12(3). https://doi.org/10.1016/j.gsf.2020.08.015

(12)The American Cancer Society medical and editorial content team. (2020, August 5). Arsenic and Cancer Risk. American Cancer Society. https://www.cancer.org/cancer/cancer-causes/arsenic.html

(13)Undark Magazine. (2019, December 20). The Poisoning of Bangladesh: How Arsenic Is Ravaging a Nation. https://undark.org/2017/08/16/bangladesh-arsenic-poisoning-drinking-water/

(14)Yogarajah, N., & Tsai, S. S. H. (2015, May 1). Detection of trace arsenic in drinking water: challenges and opportunities for microfluidics - Environmental Science: Water Research & Technology (RSC Publishing) DOI:10.1039/C5EW00099H. Royal Society of Chemistry. https://pubs.rsc.org/en/content/articlehtml/2015/ew/c5ew00099h

(15)Arsenic W.H.O. World Health Organization. February. 2018. [Accessed August 3, 2018]. Available from: http://www.who.int/news-room/fact-sheets/detail/arsenic.

Sequence and Features