Team:Fatih Turkey/Safety

From 2011.igem.org

(Difference between revisions)
 
(17 intermediate revisions not shown)
Line 1: Line 1:
-
In our history, our hero is B.subtilis because of capability of catching E.coli, especially gram-negative bacteria species presenting LPS layer with the help of synthesized Limulus anti-LPS factor (LALF) onto the biofilm. On the other hand, in The Canvas Town, all species of our project story including B.subtilis police squad and E.coli gang can synthesize Reflectin protein transferred from cephalopod.
+
<html xmlns="http://www.w3.org/1999/xhtml">
 +
<head>
 +
<meta http-equiv="Content-Type" content="text/html; charset=UTF-8">
 +
<title>deneme baslik</title>
 +
<style>
 +
h1.firstHeading, div#p-logo, div#search-controls, div#contentSub, div#footer-box, div#catlinks{
 +
  display:none;
 +
}
 +
#menubar{
 +
background-color: transparent;
 +
font-size: 85%;
 +
top: 10px;
 +
position: absolute;
 +
margin-top: -12px;
 +
}
-
Here, we will answer the safety questions to tell how we will take precautions in our lab experiments and in usage of our project in public.
+
div#content{
 +
padding: 0 !important;
 +
background: transparent;
 +
border: none !important;
 +
width: auto;
 +
}
-
'''1. Would any of your project ideas raise safety issues in terms of:'''
+
#menubar li a {
-
We have one plan to raise safety issues when studying with B.subtilis. Under stress conditions, B. subtilis will form spores. These spores are highly resistant versions of single cells. While B. subtilis itself isn't pathogenic, its spores can be damaging if inhaled. They are also highly resistant to many conditions that are used to kill cells. Therefore, in other iGEM projects, teams in future may want to kill spores to increase their projects’ safety level. To achieve this, we optimize a procedure to kill spores in liquid cultures and on solid surfaces with the help of aqueous dissolved Oxygen, Ascorbic Acid, and Copper Ions involving treatment, whose details are given in human practice part.
+
color: #FFFFFF;
-
Researcher Safety
+
background-color: transparent;
-
Our all experiments have been performed in the Synthetic Biology lab, opened for following iGEM competitions at Fatih Medical School. During project, we have made lab meetings in a week to consider safety rules and lab regulations before starting to our project. Also, during lab experiments, lab technicians and instructors of our team have been helping in handling and safety removing of B.subtilis and E.coli bacteria culture. Also, project advisor has been participating in all lab executions to perform risk assessments which may rise during experiments and lab usage. In addition, we plan to design a biofilm containing anti-LPS factor even without B.subtilis and its spores in our project. Because of that reason, we will also kill B.subtilis spores on the biofilm before testing our biofilm with exposure to E.coli by performing dissolved oxygen procedure. This procedure is optimized to kill the spores which may be infectious to humans when using our designed biofilm on the surfaces. Thus, we try to maximize safety of our project. Next, we add some general safety issues related with our studies in our lab as follows:
+
}
 +
#globalWrapper{
 +
margin-top:5px;
 +
}
 +
#top-section{
 +
height: 20px !important;
 +
border: none !important;
 +
}
 +
body {
 +
font-size: 12px;
 +
font-family: Verdana, Arial, SunSans-Regular, Sans-Serif;
 +
color: #444;
 +
background: #6b6b6b url('http://igem.org/wiki/images/a/ad/Bg-igem.png');
 +
}
 +
body,p,pre,div,span{
 +
line-height: 160%;
 +
color: #333;
 +
}
 +
html, body, div, span, object, iframe, h1, h2, h3, h4, h5, h6, blockquote, pre, a, abbr, acronym, address,
 +
code, del, dfn, em, img, q, dl, dt, dd, ol, ul, li, fieldset, form, label, legend, table, caption, tbody, tfoot, thead, tr, th, td
 +
{
 +
margin:0;
 +
padding:0;
 +
border:0;
 +
font-weight:inherit;
 +
font-style:inherit;
 +
font-family:inherit;
 +
vertical-align:baseline;
 +
}
-
Some safety Issues:
+
em{
-
1. What protective equipment will be used to minimize exposure of laboratory personnel who will be working with the agent? lab coats and gloves
+
font-style:italic;
-
2. What will be used for handwashing? Soap or alcohol gel
+
}
-
3. Please state the signs and symptoms of infection. Ingestion of E. coli may cause diarrhea with or without abdominal cramps. Skin infections may be inflammed. Conjunctivitis may occur after inoculation of the eye.
+
table{
-
4. Please describe post-exposure therapy to be used in the event of accidental exposure. Rinse contaminated areas with soap and water. Mucous membranes should be flushed with water. For accidental ingestion rinse mouth with water, but do not swallow
+
margin-top: 15px;
-
Actually, in lab procedures, there were no many chemical hazards. In gel preparation and electrophoresis, there were some dangerous chemical but these procedures were being performed in the special electrophoresis room and its responsible team members were potentially informed about the hazards.  
+
margin-bottom: 15px;
 +
}
 +
hr{
 +
border: 0;
 +
color: #eee;
 +
background-color: #eee;
 +
height: 1px;
 +
margin-bottom: 20px;
 +
}
 +
img.centered {
 +
display: block;
 +
margin-left: auto;
 +
margin-right: auto;
 +
}
 +
img.alignnone {
 +
margin: 0px 0px 5px 5px;
 +
display: inline;
 +
}
 +
img.alignright {
 +
margin: 0px 0px 5px 10px;
 +
display: inline;
 +
}
-
On the other hand, in other procedures, we have had some biological hazards especially related with B.subtilis. Throughout the project, we used the Escherichia coli strain Top10 and BL1; Bacillus subtilis strain 3610 and Bacillus subtilis strain 168. Wild-type E. coli is classified as a hazard group 2 pathogen by the UK Advisory Committee on the Dangerous Pathogens (ACDP). Wild-type Bacillus subtilis (i.e. strain 3610) is classified as an ACDP hazard group 1 organism and its derivative B. subtilis strain 168 has disabling auxotrophs mutations (e.g. conferring a requirement for tryptophan, Zeigler et al, 2008) that makes it even less likely to colonise or cause harm to human or animal health. B.subtilis is at level 1 biosafety according to World Health Organization (WHO).
+
img.alignleft {
 +
margin: 0px 10px 5px 0px;
 +
display: inline;
 +
}
 +
.alignright {
 +
float: right;
 +
}
-
Public Safety
+
.alignleft {
 +
float: left;
 +
}
 +
.aligncenter{
 +
margin-left: auto;
 +
margin-right: auto;
 +
}
 +
h1,h2,h3,h4,h5,h6{
 +
  margin-top: 15px;
 +
  margin-bottom: 15px ;
 +
  color: #333;
 +
  line-height: 1.5em;
 +
}
 +
h1 {
 +
font-size: 30px;
 +
}
 +
h2 {
 +
font-size: 25px;
 +
}
 +
h3 {
 +
font-size: 20px;
 +
}
 +
h4 {
 +
font-size: 18px;
 +
}
 +
h5 {
 +
font-size: 16px;
 +
}
-
To increase public safety of our project, our first plan is to kill all infectious particles especially B.subtilis spores on the biofilm. To do this, as we mentioned above, we clean the biofilm from the spores by the treatment with Fenton reagent containing dissolved oxygen and other constituents. Thus, our designed biofilm will be safe for public use and its effectiveness and safety level can be improved in future.  
+
h6 {
 +
font-size: 15px;
 +
}
 +
a{
 +
text-decoration: none;
 +
}
 +
a{
 +
color: #2f86c4;
 +
}
 +
a:hover{
 +
color: #4172ab;
 +
}
 +
#header .logo{
 +
margin-top: 41px;
 +
margin-left: 40px;
 +
}
 +
#footer{
 +
background: #707070;
 +
border-left: 1px #888 solid;
 +
border-right: 1px #888 solid;
 +
width: 988px;
 +
margin: 0px auto 0px;
 +
overflow: hidden;
 +
}
 +
#footer div{
 +
color: #bbb;
 +
}
 +
#footer a{
 +
color: #c4c5cc;
 +
text-decoration: none;
 +
}
 +
#footer a:hover{
 +
color: #666;
 +
}
-
B.subtilis is not associated with disease process in humans, however, may prove to be opportunistic pathogens capable of causing infection in the very young, in the aged and in immunodeficient or immunosuppressed individuals when we regarding public safety. Before using our project in public condition, especially on food safety and non-pathogenic surface safety via using biofilm, considerable further research and tests are absolutely necessary as our Fenton reagent treatment protection. Indeed, production of biofilm from B.subtilis without B.subtilis bacteria and only including anti-LPS factor is necessary and should be such a non-pathogenic biofilm. To be able to remove pathogenic effects of B.subtilis and its waste is necassary before using on surface to be bacteriacidal for gam-negative bacteria via anti-LPS factor for public safety.  
+
.footer-sh-wrapper {
 +
    height: 22px;
 +
    margin: auto;
 +
    position: relative;
 +
    width: 990px;
 +
}
 +
.footer-sh-left {
 +
    background: url("http://2011.igem.org/wiki/images/b/b7/Footer-sh-left.png") no-repeat scroll 0 0 transparent;
 +
    height: 112px;
 +
    left: 0;
 +
    position: absolute;
 +
    top: -90px;
 +
    width: 10px;
 +
}
 +
.footer-sh {
 +
    background: url("http://2011.igem.org/wiki/images/b/bf/Footer-sh.png") repeat-x scroll center bottom #F9F9F9;
 +
    bottom: 0;
 +
    height: 22px;
 +
    left: 10px;
 +
    position: absolute;
 +
    width: 970px;
 +
}
 +
.footer-sh-right {
 +
    background: url("http://2011.igem.org/wiki/images/b/b5/Footer-sh-right.png") no-repeat scroll 0 0 transparent;
 +
    height: 112px;
 +
    position: absolute;
 +
    right: 0;
 +
    top: -90px;
 +
    width: 10px;
 +
}
-
Environmental Safety
+
.copyright-open{
 +
width: 988px;
 +
height: 0px;
 +
margin:auto;
 +
display: block-inline;
 +
}
 +
h1, h2, h3, h4, h5, h6{
 +
color: #333333;
 +
}
 +
#header-whole{
-
Bacillus subtilis strain 3610 is wild type strain that is already widespread in the environment. It has not been modified to enhance their ability to survive, disseminate or displace other organisms. Thus, there is no specific environmental hazards associated with the Bacillus subtilis strain 3610 except its spore formation. Environmental safety is kept to prevent from spores in our synthetic biofilm by Fenton reagent treatment.  
+
position: relative;
 +
z-index: 200;
 +
width: 980px;
 +
margin: 0 auto;
 +
}
 +
#header{
 +
height: 100px;
 +
clear: both;
 +
background: #f9f9f9;
 +
margin: 0 auto;
 +
    width: 970px;
 +
}
 +
#header .logo{
 +
float: left;
 +
margin-top: 15px;
 +
margin-left: 20px;
 +
}
-
E. coli strain TOP10 and BL1 have very limited ability to survive outside the laboratory so that it would be unable to survive, disseminate, or displace other organisms in environment. Therefore, there is no specific environmental hazards associated with the E. coli strains.  
+
#container{
 +
width: 970px;
 +
margin: 0px auto 0px;
 +
background: none repeat scroll 0 0 #F9F9F9;
 +
}
 +
.copyright-open{
 +
border-top: 1px #a8a8a8 solid;
 +
border-bottom: 1px #888 solid;
 +
border-left: 1px #888 solid;
 +
border-right: 1px #888 solid;
 +
}
 +
.nav-wrapper{
 +
margin: 0px 90px 0px 0px;
 +
float:right;
 +
}
 +
.ddsmoothmenu ul{
 +
padding: 0px;
 +
list-style-type: none;
 +
background: #666666;
 +
}
 +
.ddsmoothmenu ul li{
 +
position: relative;
 +
display: block;
 +
float: left;
 +
}
 +
.ddsmoothmenu ul li a{
 +
line-height: 140%;
 +
overflow: hidden;
 +
text-align: left;
 +
font-family: 'Lucida Grande', Arial, Verdana, sans-serif;
 +
word-spacing: 1px;
 +
font-size: 14px;
 +
font-weight: normal;
 +
display: block; /*background of menu items (default state)*/
 +
padding: 34px 20px 10px 17px;
 +
text-decoration: none;
 +
}
 +
.ddsmoothmenu ul li a span {
 +
font-weight: normal;
 +
color: #888;
 +
font-size: 10px;
 +
clear: both;
 +
display:block;
 +
width: 60px;
 +
}
 +
* html .ddsmoothmenu ul li a{ /*IE6 hack to get sub menu links to behave correctly*/
 +
display: inline-block;
 +
}
-
All bacterial waste are kept in 10% bleaching solution for one day then autoclaved to be sterilized.
+
.ddsmoothmenu ul li a:link, .ddsmoothmenu ul li a:visited{
 +
color: #333;
 +
}
-
2. Do any of the new BioBrick parts (or devices) that you made this year raise any safety issues?
+
.ddsmoothmenu ul li a.selected{ /*CSS class that's dynamically added to the currently active menu items' LI A element*/
-
 did you document these issues in the Registry?
+
color: #888;
-
We have documented our safety issues possessing device with the part ID Bba_K541001. The device which produces and secretes  Limulus anti-LPS factor (LALF)  into medium by B. Subtilis, which  can bind LPS on gram negative bacteria and neutralize its biological effects or enhance its clearance could have important clinical applications. Lipopolysaccharide (LPS), or endotoxin, is the major mediator of septic shock, a serious complication of Gram-negative bacterial infections in humans. Thus, this part can be used to kill infectious gram negative bacteria in iGEM projects if needed like antibiotic.
+
}
-
Also we will add alternative devices and parts to raise safety issues in the registry.
+
-
 how did you manage to handle the safety issue?
+
-
In our Project, we plan to design LALF protein producing system in a specific bacteria that will not be harmed by this bactericide itself. To do this, we needed a bacteria type that has no lip-A structure which is bound by LALF. Thus, we decided to use Bacillus subtilis colonies which are the most prefered gram positive bacteria in iGEM. In conclusion, our “protector” bacteria affects on E. Coli mortally, therefore our remaining region is cleared from E.coli. As a future aspect, a special covering material, a biofilm for example, may be used as a cover sheet on surfaces that leads to protection of bacteria.
+
.ddsmoothmenu ul li a:hover{
-
 How could other teams learn from your experience?
+
color: #888;
-
Other teams can have knowledge about our experiences with anti-LPS factor synthesized from B.subtilis against E.coli via our wiki, especially in project plan site.  
+
}
-
Into iGEM forum system, we have opened a box for `The safety parts` under `lab’ main box (http://igem.org/forum/Comment_List?n=322&s=1); thus, teams can learn from the experiences of parts of other teams. Also, we can add safety issues video via Youtube and integrate into the forum to inform other teams.  
+
 +
/*1st sub level menu*/
 +
.ddsmoothmenu ul li ul{
 +
position: absolute;
 +
left: 0;
 +
visibility: hidden;
 +
display: none; /*collapse all sub menus to begin with*/
 +
border: 1px #222 solid;
 +
-webkit-box-shadow: rgba(0, 0, 0, 0.2) 0px 0px 2px 1px;
 +
-moz-box-shadow: rgba(0, 0, 0, 0.2) 0px 0px 2px 1px;
 +
box-shadow: rgba(0, 0, 0, 0.2) 0px 0px 2px 1px;
 +
}
-
3. Is there a local biosafety group, committee, or review board at your institution?
+
/*Sub level menu list items (undo style from Top level List Items)*/
 +
.ddsmoothmenu ul li ul li{
 +
text-align:left;
 +
float: none;
 +
background: url('img/bg-menu2.png');
 +
}
-
In Fatih University, Patient and Employee Safety Committee functions as preservation and control of use of chemicals, radiation and infectious medical waste in our laboratory. In addition, the committee performs courses on the safety issues to scientists and workers.
+
.ddsmoothmenu ul li ul li a{
 +
color: #fff;
 +
font-size: 12px;
 +
}
 +
.ddsmoothmenu ul li ul li  a.selected{ /*CSS class that's dynamically added to the currently active menu items' LI A element*/
 +
color: #fff;
 +
}
 +
.ddsmoothmenu ul li ul li a:link, .ddsmoothmenu ul li ul li a:visited{
 +
color: #fff;
 +
}
 +
.ddsmoothmenu ul li ul li a:hover{
 +
color: #ffc;
 +
}
 +
.ddsmoothmenu ul li ul li ul{
 +
top: 0;
 +
}
-
4. Do you have any other ideas how to deal with safety issues that could be useful for future iGEM competitions? How could parts, devices and systems be made even safer through biosafety engineering?
+
/* Sub level menu links style */
-
We think that Synthetic Biology Safety Police Squads can be founded for each continental competitions. This squad may be chosen from an iGEM team from each continent or colloboration of some experienced teams or independent individuals. Firstly, an iGEM team from a continent wanting to be the safety squad, can control new established synthetic biology labs and perform meetings via electronic communication ways (i.e. Skype) to share their safety precautions with new iGEM teams about their lab needs for security and improvement of project safety of new iGEM teams. For example, experienced iGEM team which may be also experienced with viral Synthetic biology projects can help another iGEM teams which possess to perform synthetic biology projects on viruses. Thus, experinced teams can collaborate with new teams their experiences while doing such projects. Thus, the Synthetic Biology Safety Police iGEM team can be also regarded as completing their ‘Collaboration option with other teams’  which is required for Gold Award in judgement.
+
.ddsmoothmenu ul li ul li a{
 +
width: 160px; /*width of sub menus*/
 +
padding: 0px 0px 0px 10px;
 +
height: 38px;
 +
line-height: 320%;
 +
border-left: 1px #555 solid;
 +
overflow: hidden;
 +
}
-
In addition, a safety plan, procedures, prerequisites and meeting how to perform a safe iGEM project in a lab can be gathered in a CD which may be distributed to each iGEM team with Part Distribution. Thus, each team can update their labs and their project thinking ways during studying time.
+
/* Holly Hack for IE \*/
 +
* html .ddsmoothmenu{height: 1%;} /*Holly Hack for IE7 and below*/
 +
 
 +
.copyright{
 +
width: 930px;
 +
color: #959595;
 +
background: #eee;
 +
clear: both;
 +
line-height: 190%;
 +
text-align: right;
 +
padding: 10px 20px 10px;
 +
margin: 0px auto 0px;
 +
}
 +
.copyright a{
 +
color: #bbb;
 +
text-decoration: none;
 +
}
 +
.copyright a:hover{
 +
color: #ccc;
 +
}
 +
.bar-title-whole{
 +
overflow: visible;
 +
position: relative;
 +
width: 990px;
 +
margin: auto;
 +
z-index: 10;
 +
}
 +
.bar-title{
 +
background: #999 url('http://2011.igem.org/wiki/images/e/e9/Bar-title-bg.jpg') top;
 +
border-left: 1px #8a8a8a solid;
 +
border-right: 1px #8a8a8a solid;
 +
 
 +
width: 918px;
 +
height: 122px;
 +
margin: auto;
 +
overflow: hidden;
 +
padding-left: 35px;
 +
padding-right: 35px;
 +
color: #ddd;
 +
line-height: 150%;
 +
font-size: 12px;
 +
 +
position: relative;
 +
z-index: 10;
 +
}
 +
 
 +
.bar-title h2{
 +
color: #fff;
 +
margin-top: 15px;
 +
margin-bottom: 30px !important;
 +
}
 +
.bar-title h5{
 +
color: #eee;
 +
}
 +
.bar-title-sh-left{
 +
width: 10px;
 +
height: 112px;
 +
background: url('http://2011.igem.org/wiki/images/6/69/Bar-title-sh-left.png') no-repeat;
 +
display: block-inline;
 +
position: absolute;
 +
top: 122px;
 +
left: 0px;
 +
}
 +
.bar-title-sh{
 +
width: 970px;
 +
height: 8px;
 +
background: url('http://2011.igem.org/wiki/images/3/37/Bar-title-sh.png') repeat-x;
 +
display: block-inline;
 +
position: absolute;
 +
top: 122px;
 +
left: 10px;
 +
}
 +
.bar-title-sh-right{
 +
width: 10px;
 +
height: 112px;
 +
background: url('http://2011.igem.org/wiki/images/c/c6/Bar-title-sh-right.png') no-repeat;
 +
display: block-inline;
 +
position: absolute;
 +
top: 122px;
 +
right: 0px;
 +
}
 +
#page{
 +
    width: 970px;
 +
    margin: 0px auto 0px;
 +
    overflow: hidden;
 +
    background: #f9f9f9;
 +
   
 +
}
 +
 
 +
#page .page-wrapper{
 +
margin: 15px 30px 0px 30px;
 +
width: 910px;
 +
overflow: hidden;
 +
float: left;
 +
}
 +
#page .page-wrapper-right{
 +
margin: 30px 40px 0px 25px;
 +
width: 935px;
 +
overflow: hidden;
 +
float: right;
 +
}
 +
#page .title-wrapper h1{
 +
margin-top: 0.5em;
 +
margin-bottom: 0.3em;
 +
}
 +
#page .meta-left-full{
 +
margin: 15px 0px 5px 0px;
 +
overflow: hidden;
 +
}
 +
#page .meta-left-button{
 +
margin: 5px 0px 60px 0px;
 +
overflow: hidden;
 +
}
 +
#page .w600{
 +
width: 600px;
 +
}
 +
 +
</style>
 +
 
 +
 
 +
</head>
 +
<body>
 +
<script type="text/javascript" src="http://simsekburak.com/fatihigem/ddsmoothmenu.js"></script>
 +
 
 +
<script>
 +
$(document).ready(
 +
ddsmoothmenu.init({
 +
mainmenuid: "topmenu",
 +
orientation: 'h',
 +
classname: 'ddsmoothmenu',
 +
contentsource: "markup"
 +
}));
 +
 
 +
jQuery(window).load(function() {
 +
setTimeout(function(){
 +
jQuery('#slider').nivoSlider({
 +
pauseTime:4000,
 +
animSpeed:600,
 +
captionOpacity: 0.8,
 +
pauseOnHover:true,
 +
directionNav:true,
 +
directionNavHide:true,
 +
controlNavThumbs:true,
 +
controlNavThumbsFromRel:true,
 +
});
 +
}, 1000),
 +
setTimeout(function(){
 +
/* For slider shortcode */
 +
jQuery('#slider2').nivoSlider({
 +
pauseTime:4000,
 +
animSpeed:600,
 +
captionOpacity: 0.8,
 +
pauseOnHover:true,
 +
directionNavHide:true });
 +
}, 1000);
 +
 +
});
 +
</script>
 +
 
 +
<div class="body-2">
 +
<!-- Header -->
 +
<div id="header-whole">
 +
<div id="header">
 +
<a href="http://2011.igem.org/" style="position:absolute; right:10px; top:5px;"><img src="http://2011.igem.org/wiki/images/9/9c/Igem_basic_logo.png"/></a>
 +
<!-- Logo -->
 +
<div>
 +
<div class="logo">
 +
<a href="http://2011.igem.org/Team:Fatih_Turkey">
 +
<img width="258" src="http://2011.igem.org/wiki/images/b/b6/Fatih_turkey_logo.png">
 +
</a>
 +
</div>
 +
</div>
 +
<!-- Menu -->
 +
<div class="nav-wrapper">
 +
<div class="nav-main">
 +
<div id="topmenu" class="ddsmoothmenu">
 +
<ul id="menu-main" class="menu">
 +
<li>
 +
<a href="http://2011.igem.org/Team:Fatih_Turkey">Home</a>
 +
</li>
 +
<li>
 +
<a href="http://2011.igem.org/Team:Fatih_Turkey/Project">Project</a>
 +
<ul>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Project">Overall Project</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/LALF">LALF</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Reflectin">Reflectin</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Biofilm">Biofilm</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Experiments">Experiments</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Parts">Parts</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Future_Plan">Future Plan</a></li>
 +
</ul>
 +
</li>
 +
<li>
 +
<a href="http://2011.igem.org/Team:Fatih_Turkey/Data_Page">Data Page</a>
 +
</li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Team">Team</a>
 +
<ul>
 +
                                                                                <li><a
 +
href="http://2011.igem.org/Team:Fatih_Turkey/Members">Members</a></li>
 +
                                                                                  <li><a
 +
href="http://2011.igem.org/Team:Fatih_Turkey/Gallery">Gallery</a></li>
 +
                                                                                  <li><a
 +
href="http://2011.igem.org/Team:Fatih_Turkey/Europe_Jamboree">Europe Jamboree</a></li>
 +
</ul>
 +
</li>
 +
<li>
 +
<a href="http://2011.igem.org/Team:Fatih_Turkey/Human_Practice">Human Practice</a>
 +
<ul>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Sporocide">Sporicide</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/iGEM_for_7_to_77">iGEM for 7 to 77</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/game">Game</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/canvas_times">Canvas Times</a></li>
 +
                                                                                <li><a
 +
href="http://2011.igem.org/Team:Fatih_Turkey/Safety">Safety</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/collaboration">Collaboration</a></li>
 +
</ul>
 +
</li>
 +
<li>
 +
<a href="http://2011.igem.org/Team:Fatih_Turkey/Lab_Garage">Lab Garage</a>
 +
<ul>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Notebook">Notebook</a></li>
 +
<li><a href="http://2011.igem.org/Team:Fatih_Turkey/Procedures">Procedures</a></li>
 +
</ul>
 +
</li>
 +
                                                            </ul>
 +
</div>
 +
</div>
 +
</div>
 +
</div>
 +
</div>
 +
<!-- End Header -->
 +
<div class="bar-title-whole">
 +
  <div class="bar-title">
 +
      <h2 style="font-family: Verdana, Arial, SunSans-Regular, sans-serif;">Safety</h2>
 +
      <h5 style="font-family: Verdana, Arial, SunSans-Regular, sans-serif;"></h5>
 +
    </div>
 +
  <div class="bar-title-sh-left"></div>
 +
  <div class="bar-title-sh"></div>
 +
  <div class="bar-title-sh-right"></div>
 +
        </div>
 +
</div>
 +
<div id="container">
 +
<div id="page">
 +
<div class="page-wrapper">
 +
<!-- post container -->
 +
<div>
 +
<div class="meta-left-full">
 +
 
 +
<p>FATIH UNIVERSITY MEDICAL SCHOOL ANSWERS TO NEW SAFETY  AND SECURITY QUESTIONS<br />
 +
<br>
 +
<p><center><img src="http://2011.igem.org/wiki/images/a/a1/Donoteatordrink.jpg" width="300" /></center></p>
 +
<br>
 +
 
 +
    <strong>1. Would the  materials used in your project and/or your final product pose:</strong><br />
 +
    <strong>a. Risks to  the safety and health of team members or others in the lab?</strong></p>
 +
<p>Actually few hazardous chemicals and solutions such as  EtBr are used in some lab procedures such as gel preparation and  electrophoresis. However these chemicals and solutions are used according to  the safety rules of the laboratory with care and caution. All the members were  trained for safety regulations of the laboratory as well as toxicity of the  chemicals and solutions before starting the current project.<br />
 +
    <strong>b. Risks to  the safety and health of the general public if released by design or accident?</strong></p>
 +
<p>When released by accident, our parts and materials  actually cause no negative damage to the general public. B.subtilis is known  not to be associated with disease process in humans in regular conditions, and  thus, is supposed to be benign by nature and present no danger to anyone. Only  under stress conditions, B. subtilis may form spores and these spores are  resistant versions of single cells. While B. subtilis itself is not pathogenic,  its spores may be infectious if inhaled. But all of our team members are trained  for safety of the laboratory rules and use mask and gloves when dealing with  bacteria. Besides all experiments are performed in synthetic laboratory  designated by Fatih University Medical School and no material is carried out of  the laboratory. However to increase public safety of our project, in case of  accident, our plan is to destroy particles and spores of B.subtilis by treating  with Fenton reagent solutions containing dissolved oxygen and other  constituents.<br />
 +
    <strong>c. Risks to  environmental quality if released by design or accident?</strong></p>
 +
<p>Bacillus subtilis strain 3610 is a wild type strain  that is already widespread in the environment. B. subtilis strain 168 is a  derivative strain of the 3610 and has disabling auxotrophs mutations that make  it even less likely to colonize or cause harm to human or animal health. Our  experiment does not include any modifications, which enhance their ability to  survive or disseminate. Thus, there is no specific environmental risk  associated with use of the Bacillus subtilis strains except its spore  formation. In case of accident, cleaning and treating the spores with Fenton  reagent as mentioned above provide environmental safety. Besides, all  procedures are performed in a specified laboratory.</p>
 +
<p>E. Coli strains TOP10 and BL1 have very limited  ability to survive outside the laboratory; so that, it would be unable to  survive or disseminate. Therefore, there is no specific environmental risk  associated with the E. coli strains. All bacterial wastes are kept in 10%  bleaching solution for one day, and then, are autoclaved to be sterilized.<br />
 +
    <strong>d. Risks to  security through malicious misuse by individuals, groups or states?</strong></p>
 +
<p>Please explain your responses (whether yes or no) to  these questions. Specifically, are any parts or devices in your project  associated with (or known to cause):</p>
 +
<p><strong>    * pathogenicity, infectivity, or toxicity?</strong> No<br />
 +
    <strong>    * threats to environmental quality?</strong> No<br />
 +
    <strong>    * security concerns?</strong> No</p>
 +
<p>As explained above:<br />
 +
  Nothing could be used maliciously in our project. The  materials we use are commonly used in experimental procedures in various  laboratories all over the world and all are harmless and do not pose any threat  to environment and public as well as security concerns.</p>
 +
<p>Throughout the project, we used the Escherichia coli  strains Top10 and BL1; Bacillus subtilis strains 3610 and 168. Wild-type E.  coli is classified as hazard group 2 pathogen by the UK Advisory Committee on  the Dangerous Pathogens (ACDP) and Wild-type Bacillus subtilis (i.e. strain  3610) is classified as hazard group 1 organism by the ACDP and its derivative  B. subtilis strain 168 has disabling auxotrophs mutations (e.g. conferring a  requirement for tryptophan, Zeigler DR et al, 2008. J of Bacteriology) that  makes it even less likely to colonize or cause harm to human or animal health.  B.subtilis is at level 1 biosafety according to World Health Organization  (WHO).<br />
 +
    <strong>2. If your  response to any of the questions above is yes:</strong><br />
 +
    <strong>a. Explain how you addressed these issues in project design and while conducting laboratory  work.</strong><br />
 +
    <strong>b. Describe  and document safety, security, health and/or environmental issues as you submit  your parts to the Registry</strong><br />
 +
    <strong>3. Under what  biosafety provisions will / do you operate?</strong><br />
 +
    <strong>a. Does your  institution have its own biosafety rules and if so what are they? Provide a  link to them online if possible</strong></p>
 +
<p>Yes, our institution has its own biosafety rules.  Rules for laboratory use, general principles, prevention from hazardous  materials and application of emergency intervention in case of accident are  included. The web link is given as  (http://www.fatihmed.edu.tr/icerik/guvenlikkilavuzu.php).<br />
 +
    <strong>b. Does your  institution have an Institutional Biosafety Committee or equivalent group? If  yes, have you discussed your project with them? Describe any concerns or  changes that were made based on this review</strong></p>
 +
<p>Yes. In Fatih University Medical School, Laboratory  and Patient-Employee Safety Committee is responsible for control as well as  biosafety of laboratories and safety of patients and employees. This committee  works under one of the vice medical director of Fatih University Hospital,  Prof. Dr. Mehmet Gunduz. Form on safety rules of Fatih University Medical  School Laboratory use was filled in as required. We discussed our project with  Prof. Dr. Mehmet Gunduz. Safety and security issues are found sufficient enough  that no change is considered as necessary. (Further questions can be directed  to Prof. Gunduz, tel: +90-312-203 5103, mgunduz@fatih.edu.tr)<br />
 +
    <strong>c. Will / did  you receive any biosafety and/or lab training before beginning your project? If  so, describe this training.</strong></p>
 +
<p>Yes, we did. Our advisor provided us with biosafety  and lab training before starting our project. In the training, general safety  rules of laboratory use, prevention from hazardous chemicals and solutions as  well as emergency intervention in case of accident were included such as:</p>
 +
<ul>
 +
  <li> - Eating, drinking, storing food and smoking are  absolutely not allowed. </li>
 +
  <li> - Mouth pipetting is not allowed; modern pipettes  are used in lab.</li>
 +
  <li> - Hazardous wastes and ordinary wastes are  separated and cautiously disposed.</li>
 +
  <li> - Lab coats are obligatory to wear in the lab and  during on-going experiments.</li>
 +
  <li> - In electrophoresis room, lab coat, protective  eyewear, lab masks and gloves have to be worn. In the case of use of EtBr;  extra caution is required.</li>
 +
  <li> - Washing hands after any experiment and after touching  anything related with viable material is obliged.</li>
 +
  <li> - Air conditioning is kept closed during on-going experiments  in order to avoid possible infections of spores and bacteria.</li>
 +
</ul>
 +
<p><strong>d. Does your  country have national biosafety regulations or guidelines? If so, provide a link to them online if possible.</strong></p>
 +
<p>Yes, Turkey has national biosafety regulations and the  link is given as  (http://www.tbbdm.gov.tr/Home/BioSafetyCouncilHome/BioSafetyCouncilHomeChoose.aspx).<br />
 +
    <strong>4. OPTIONAL  QUESTION: Do you have other ideas on how to deal with safety or security issues  that could be useful for future iGEM competitions? How could parts, devices and  systems be made even safer through biosafety engineering?</strong></p>
 +
<p> - First, IGEM committee may prepare a lab safety  acknowledgement form like OSHA form. This form can be required to be filled in  by all members. This will allow us to confirm whether members of the teams are  informed about safety issues and standardize the safety measurements.<br />
 +
    - Second, a new prize related with security and safety  issues may take place in the judging procedure separated from “Best Human  Practices” prize. Existence of “Best Safety Part” or “Best Safety Application”  can emphasize the importance of the safety issues and inspire iGEM teams to  work on these issues and may give a chance to develop new ideas, to interrogate  current safety and security applications in order to improve them.<br />
 +
    - Third, iGEM committee may organize a webinar to inform  the participants about safety and security in labs. Webinar can be done at the  beginning of the experiments. Mentor scientists may talk about their experiences  and mention some tricks about safety issues.</p>
 +
 
 +
<br>
 +
<p><center><img src="http://2011.igem.org/wiki/images/a/a7/Goggles.jpg" height="200"/>
 +
<img src="http://2011.igem.org/wiki/images/7/71/Lab_safety_guy.jpg" height="200"/></center></p>
 +
 
 +
<br><br>
 +
 
 +
</div>
 +
    </div>
 +
      </div>
 +
</div>
 +
</div>
 +
 
 +
<div class="footer-sh-wrapper">
 +
<div class="footer-sh-left"></div>
 +
<div class="footer-sh"></div>
 +
<div class="footer-sh-right"></div>
 +
</div>
 +
<div id="footer">
 +
<style>
 +
#footer img:hover{
 +
opacity:0.6;
 +
}
 +
</style>
 +
<div>
 +
<h3 style="color:#BBB;">Sponsors</h3>
 +
<img height="100" src="http://2011.igem.org/wiki/images/7/72/Tubitak_-_Kopya.png"/>
 +
<a href="http://www.sentegen.com">
 +
<img height="100" src="http://2011.igem.org/wiki/images/2/2d/Sentegennnn.png"/></a>
 +
</div>
 +
</div>
 +
<div class="copyright-open">
 +
</div>
 +
<div class="copyright">
 +
2011 © Fatih Medical School
 +
</div>
 +
</div>
 +
 
 +
 
 +
</body>
 +
</html>

Latest revision as of 01:30, 29 October 2011

deneme baslik

FATIH UNIVERSITY MEDICAL SCHOOL ANSWERS TO NEW SAFETY AND SECURITY QUESTIONS


1. Would the materials used in your project and/or your final product pose:
a. Risks to the safety and health of team members or others in the lab?

Actually few hazardous chemicals and solutions such as EtBr are used in some lab procedures such as gel preparation and electrophoresis. However these chemicals and solutions are used according to the safety rules of the laboratory with care and caution. All the members were trained for safety regulations of the laboratory as well as toxicity of the chemicals and solutions before starting the current project.
b. Risks to the safety and health of the general public if released by design or accident?

When released by accident, our parts and materials actually cause no negative damage to the general public. B.subtilis is known not to be associated with disease process in humans in regular conditions, and thus, is supposed to be benign by nature and present no danger to anyone. Only under stress conditions, B. subtilis may form spores and these spores are resistant versions of single cells. While B. subtilis itself is not pathogenic, its spores may be infectious if inhaled. But all of our team members are trained for safety of the laboratory rules and use mask and gloves when dealing with bacteria. Besides all experiments are performed in synthetic laboratory designated by Fatih University Medical School and no material is carried out of the laboratory. However to increase public safety of our project, in case of accident, our plan is to destroy particles and spores of B.subtilis by treating with Fenton reagent solutions containing dissolved oxygen and other constituents.
c. Risks to environmental quality if released by design or accident?

Bacillus subtilis strain 3610 is a wild type strain that is already widespread in the environment. B. subtilis strain 168 is a derivative strain of the 3610 and has disabling auxotrophs mutations that make it even less likely to colonize or cause harm to human or animal health. Our experiment does not include any modifications, which enhance their ability to survive or disseminate. Thus, there is no specific environmental risk associated with use of the Bacillus subtilis strains except its spore formation. In case of accident, cleaning and treating the spores with Fenton reagent as mentioned above provide environmental safety. Besides, all procedures are performed in a specified laboratory.

E. Coli strains TOP10 and BL1 have very limited ability to survive outside the laboratory; so that, it would be unable to survive or disseminate. Therefore, there is no specific environmental risk associated with the E. coli strains. All bacterial wastes are kept in 10% bleaching solution for one day, and then, are autoclaved to be sterilized.
d. Risks to security through malicious misuse by individuals, groups or states?

Please explain your responses (whether yes or no) to these questions. Specifically, are any parts or devices in your project associated with (or known to cause):

    * pathogenicity, infectivity, or toxicity? No
    * threats to environmental quality? No
    * security concerns? No

As explained above:
Nothing could be used maliciously in our project. The materials we use are commonly used in experimental procedures in various laboratories all over the world and all are harmless and do not pose any threat to environment and public as well as security concerns.

Throughout the project, we used the Escherichia coli strains Top10 and BL1; Bacillus subtilis strains 3610 and 168. Wild-type E. coli is classified as hazard group 2 pathogen by the UK Advisory Committee on the Dangerous Pathogens (ACDP) and Wild-type Bacillus subtilis (i.e. strain 3610) is classified as hazard group 1 organism by the ACDP and its derivative B. subtilis strain 168 has disabling auxotrophs mutations (e.g. conferring a requirement for tryptophan, Zeigler DR et al, 2008. J of Bacteriology) that makes it even less likely to colonize or cause harm to human or animal health. B.subtilis is at level 1 biosafety according to World Health Organization (WHO).
2. If your response to any of the questions above is yes:
a. Explain how you addressed these issues in project design and while conducting laboratory work.
b. Describe and document safety, security, health and/or environmental issues as you submit your parts to the Registry
3. Under what biosafety provisions will / do you operate?
a. Does your institution have its own biosafety rules and if so what are they? Provide a link to them online if possible

Yes, our institution has its own biosafety rules. Rules for laboratory use, general principles, prevention from hazardous materials and application of emergency intervention in case of accident are included. The web link is given as (http://www.fatihmed.edu.tr/icerik/guvenlikkilavuzu.php).
b. Does your institution have an Institutional Biosafety Committee or equivalent group? If yes, have you discussed your project with them? Describe any concerns or changes that were made based on this review

Yes. In Fatih University Medical School, Laboratory and Patient-Employee Safety Committee is responsible for control as well as biosafety of laboratories and safety of patients and employees. This committee works under one of the vice medical director of Fatih University Hospital, Prof. Dr. Mehmet Gunduz. Form on safety rules of Fatih University Medical School Laboratory use was filled in as required. We discussed our project with Prof. Dr. Mehmet Gunduz. Safety and security issues are found sufficient enough that no change is considered as necessary. (Further questions can be directed to Prof. Gunduz, tel: +90-312-203 5103, mgunduz@fatih.edu.tr)
c. Will / did you receive any biosafety and/or lab training before beginning your project? If so, describe this training.

Yes, we did. Our advisor provided us with biosafety and lab training before starting our project. In the training, general safety rules of laboratory use, prevention from hazardous chemicals and solutions as well as emergency intervention in case of accident were included such as:

  • - Eating, drinking, storing food and smoking are absolutely not allowed.
  • - Mouth pipetting is not allowed; modern pipettes are used in lab.
  • - Hazardous wastes and ordinary wastes are separated and cautiously disposed.
  • - Lab coats are obligatory to wear in the lab and during on-going experiments.
  • - In electrophoresis room, lab coat, protective eyewear, lab masks and gloves have to be worn. In the case of use of EtBr; extra caution is required.
  • - Washing hands after any experiment and after touching anything related with viable material is obliged.
  • - Air conditioning is kept closed during on-going experiments in order to avoid possible infections of spores and bacteria.

d. Does your country have national biosafety regulations or guidelines? If so, provide a link to them online if possible.

Yes, Turkey has national biosafety regulations and the link is given as (http://www.tbbdm.gov.tr/Home/BioSafetyCouncilHome/BioSafetyCouncilHomeChoose.aspx).
4. OPTIONAL QUESTION: Do you have other ideas on how to deal with safety or security issues that could be useful for future iGEM competitions? How could parts, devices and systems be made even safer through biosafety engineering?

- First, IGEM committee may prepare a lab safety acknowledgement form like OSHA form. This form can be required to be filled in by all members. This will allow us to confirm whether members of the teams are informed about safety issues and standardize the safety measurements.
- Second, a new prize related with security and safety issues may take place in the judging procedure separated from “Best Human Practices” prize. Existence of “Best Safety Part” or “Best Safety Application” can emphasize the importance of the safety issues and inspire iGEM teams to work on these issues and may give a chance to develop new ideas, to interrogate current safety and security applications in order to improve them.
- Third, iGEM committee may organize a webinar to inform the participants about safety and security in labs. Webinar can be done at the beginning of the experiments. Mentor scientists may talk about their experiences and mention some tricks about safety issues.