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Category: Uncategorized

  • Top 10 Free Resume Builders of 2024

    1. Jobscan’s Resume Builder Ease of Use: Very Easy What We Like:…

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  • Mitochondria Electron Transport Chain Q & A

    Summary of Mitochondrial Electron Transport Chain

    1). The electron transport chain as indicated by its name “transport means transfer”, is a membrane-embedded protein labelled as complex I-IV.

    2). Electron transport chain also known as ETC complexes.

    3). Electron transport chain is located on the inner mitochondrial membrane known as cristae.

    4). At electron transport chain, series of electrons transferred from complex I to IV via redox reactions (both oxidation and reduction occur simultaneously).

    5). During the courses of ETC, protons (H+ ions) transferred across a membrane, from mitochondrial matrix to intermembrane space and thus create protons (H+ ions) gradient.

    6). The flow of protons (H+ ions) from intermembrane space to mitochondrial matrix through ATP synthase drives the synthesis of adenosine triphosphate (ATP), commonly known as oxidative phosphorylation.

    Graphical Representation of Mitochondrial ETC

    "The ETC also known as mitochondrial electron transport chain, consists of five protein complexes integrated into the inner mitochondrial membrane known as cristae"

    Question: Where does the electron transport chain take place ?

    Answer: Electron transport chain occur on the inner mitochondrial membrane known as cristae.

    Question: Where are the proteins of the electron transport chain located?

    Answer: All the proteins involved in electron transport chain such as Complex I-IV, ATP Synthase located on the inner mitochondrial membrane known as cristae.

    Question: How many ATP are generated in the electron transport chain?

    Answer: A total of 32 ATP molecules are generated in electron transport process during oxidative phosphorylation.

    Question: In the electron transport chain the final electron acceptor is?

    Answer: Oxygen is the final electron acceptor.

    Question: Does the electron transport chain require oxygen?

    Answer: Yes, because oxygen serve as a final electron acceptor during the course of ETC process.

    Question: Electron transport chain aerobic or anaerobic?

    Answer:

    Aerobic: In the presence of oxygen.

    Anaerobic: In the absence of oxygen.

    Since oxygen serve as a final electron acceptor during the course of ETC process. So, it is an aerobic process.

    Question: What does the electron transport chain produce?

    Answer: During the process of electron transport chain, electron transfer from complex I to IV via redox reactions (both oxidation and reduction occur simultaneously). These reactions generate proton (H+) gradient which later on utilized to produce ATP.

    Question: What does the electron transport chain do?

    Answer: Electron transport chain is a series of complex reaction where electron transfer from complex I to IV via redox reactions. These reactions generate proton (H+) gradient which later on utilized to produce ATP.

    Question: What are the products of the electron transport chain?

    Answer: Electron transport chain generate (H+ ions) gradient for ATP synthesis.

    Question: What are purpose of electron transport chain?

    Answer: To support electron transfer from complex I to IV via redox reactions and thus ATP generation.

    Question: What happens during the electron transport chain?

    Answer:Electrons flow from complex I-IV and thus create (H+ ions) gradient which later on utilized in ATP synthesis by ATP synthase.

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  • How many ATP are generated in the...

    Question: How many ATP are generated in the electron transport chain?

    Summary of Mitochondrial Electron Transport Chain

    1). The electron transport chain as indicated by its name “transport means transfer”, is a membrane-embedded protein labelled as complex I-IV.

    2). Electron transport chain also known as ETC complexes.

    3). Electron transport chain is located on the inner mitochondrial membrane known as cristae.

    4). At electron transport chain, series of electrons transferred from complex I to IV via redox reactions (both oxidation and reduction occur simultaneously).

    5). During the courses of ETC, protons (H+ ions) transferred across a membrane, from mitochondrial matrix to intermembrane space and thus create protons (H+ ions) gradient.

    6). The flow of protons (H+ ions) from intermembrane space to mitochondrial matrix through ATP synthase drives the synthesis of adenosine triphosphate (ATP), commonly known as oxidative phosphorylation.

    Graphical Representation of Mitochondrial ETC

    "The ETC also known as mitochondrial electron transport chain, consists of five protein complexes integrated into the inner mitochondrial membrane known as cristae"

    Question: How many ATP are generated in the electron transport chain?

    Answer: A total of 32 ATP molecules are generated in electron transport during oxidative phosphorylation.

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  • Electron Transport Chain Location

    Summary of Mitochondrial Electron Transport Chain

    1). The electron transport chain as indicated by its name “transport means transfer”, is a membrane-embedded protein labelled as complex I-IV.

    2). Electron transport chain also known as ETC complexes.

    3). Electron transport chain is located on the inner mitochondrial membrane known as cristae.

    4). At electron transport chain, series of electrons transferred from complex I to IV via redox reactions (both oxidation and reduction occur simultaneously).

    5). During the courses of ETC, protons (H+ ions) transferred across a membrane, from mitochondrial matrix to intermembrane space and thus create protons (H+ ions) gradient.

    6). The flow of protons (H+ ions) from intermembrane space to mitochondrial matrix through ATP synthase drives the synthesis of adenosine triphosphate (ATP), commonly known as oxidative phosphorylation.

    Graphical Representation of Mitochondrial ETC

    "The ETC also known as mitochondrial electron transport chain, consists of five protein complexes integrated into the inner mitochondrial membrane known as cristae"

    Question: Electron Transport Chain Location ?

    Answer: Electron transport chain is located on the inner mitochondrial membrane known as cristae.

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  • Trypan Blue Exclusion Test of Cell Viability:...

    About Trypan Blue Cell Counting

    Majority of experimental procedure in cell cultures, such as transfections, cryopreservation, cell fusion techniques and subculture routines, it is necessary to count the cell number prior to use.

    Using a consistent number of cells will help to maintain optimum growth of cells and also help researchers to optimize experimental procedures using cell cultures.

    Accurate cell number in various experiments in turn gives results with better reproducibility.

    The most common method of cell quantitation is by using hemocytometer.

    The hemocytometer, one of the most important device was invented by Louis-Charles Malassez. Hemocytometer is a thick glass microscope slide with a rectangular indentation that creates a chamber.

    Hemocytometer chamber is engraved with a laser etched grid of perpendicular lines.

    The ruled area of the hemocytometer consists of several, large, 1 x 1 mm (1 mm2) squares.

    These are subdivided in 3 areas; 0.25 x 0.25 mm (0.0625 mm2), 0.25 x 0.20 mm (0.05 mm2) and 0.20 x 0.20 mm (0.04 mm2).

    The central, 0.20 x 0.20 mm marked, 1 x 1 mm square is further subdivided into 0.05 x 0.05 mm (0.0025 mm2) squares.

    This is used in RBC counting while 1 x 1 quadrant is used in WBC counting.

    The raised edges of the hemocytometer glass slide hold the coverslip 0.1 mm off the marked grid.

    This gives each square a defined volume.

    This gives each square a defined volume.

    Trypan Blue - Research Tweet 2

    The hemocytometer is a counting-chamber device originally designed and usually used for counting blood cells. Image adopted from BioRender

    Principle of Trypan Blue Cell Counting

    When a liquid sample containing cells is placed on the chamber covered with a coverslip, capillary action completely fills the chamber with the sample.

    Looking at the chamber through a microscope, the number of cells in the hemacytometer chamber can be determined by counting.

    The cells to be counted are those which lie between the middle of the three lines on the top and right of the square and the inner of the three lines on the bottom and left of the square.

    The cell number in the hemacytometer chamber is used to calculate the concentration or density of the cells in the mixture from which the sample was taken.

    In an improved Neubauer hemocytometer (common medium), the total number of cells per ml can be calculated by simply multiplying the total number of cells found in the hemocytometer grid (area equal to the red square) by 10^4 (10,000).

    Concentration of cells in original mixture

    = (no. of cells counted) x dilution factor/volume

    = number x dilution factor /10-4ml

    = number x 10^4 x dilution factor/ml

    An example:

    Total cell suspension after trypsinisation = 1ml

    Cell suspension for counting =100μl cells+100μl trypan blue = 200μl

    The cell number in individual quadrants = 90, 78, 65, 85

    Average = 318/4 = 79.5 or whole number 80

    Total cell count = Avg. cell no. x dilution factor x10^4

    = 80 x 2 x 10^4

    = 1.6 x 10^6 cells/ml

    Trypan Blue - Research Tweet 1

    Adopted from BioRender

    Requirements of Trypan Blue Cell Counting

    Sterile:

    1. Phosphate Buffer Saline (PBS) (i.e. 137mM NaCl, 2.7mM KCl, 10mM Na2HPO4.2H2O and 2 mM KH2PO4, pH 7.4).

    2. Trypsin, 0.25%

    3. Growth medium

    4. Pipette tips

    5. Pipette

    6. Microfuge tubes

    Non Sterile:

    7. 0.4% Trypan blue solution

    8. Hemocytometer (Improved Neubauer’s chamber)

    9. Inverted Microscope, centrifuge, CO2 incubator, Biosafety cabinet

    Procedure of Trypan Blue Cell Counting

    1. Remove the media from flask containing cells.

    2. Add 2ml of 0.25% Trypsin-EDTA.

    3. Incubate for 2 minutes at 37oC in CO2 incubator. Tap occasionally to verify that the cells are releasing. Check in microscope to visualize detachment of cells.

    4. Remove trypsin-EDTA. Add fresh 2 ml of medium and rinse cell layer two or three times to dissociate cells and to dislodge any remaining adherent cells.

    5. Mix the suspension thoroughly to disperse the cells, and transfer a small sample (~0.1 ml) to a vial.

    6. Clean the surface of the slide with 70% alcohol or IPA, taking care not to scratch the semi silvered surface.

    7. Clean the coverslip, wet the edges very slightly, and press it down over the grooves and semi silvered counting area.

    8. Mix the cell sample thoroughly, pipette vigorously to disperse any clumps and collect 20 μl into the tip of a pipette.

    9. Transfer the cell suspension immediately to the edge of the hemocytometer chamber, and expel the suspension and let it be drawn under the coverslip by capillarity action. Do not overfill or underfill the chamber, or else its dimensions may change due to alterations in the surface tension; the fluid should run only to the edges of the grooves.

    10. Blot off any surplus fluid (without drawing from under the coverslip) and transfer the slide to the microscope stage.

    11. Select a 10X objective and focus on the grid lines in the chamber. Move the slide so that the field you see is the central area of the grid and is the largest area that can be seen bounded by three parallel lines. This area is 1 mm2 With a standard 10X objective, this area will almost fill the field or the corners will be slightly outside the field, depending on the field of view.

    12. Count the cells lying within this 1mm2 area using the subdivisions (also bounded by three parallel lines) and single grid lines as an aid for counting. Count cells that lie on the top and left hand lines of each square, but not those on the bottom or right-hand lines, to avoid counting the same cell twice.

    13. If there are very few cells (<100/mm2), count one or more additional squares (each 1 mm2) surrounding the central square.

    14. If there are too many cells (>1000/mm2), count only five small squares (each bounded by three parallel lines) across the diagonal of the larger (1 mm2) square.

    15. Determine number of viable cells by mixing 100 μl of cell suspension and 100 μl of 0.5% trypan blue (trypan blue is excluded by live cells).

    16. Load on hemocytometer and count the viable and non-viable cells. Calculate percentage of viable cells by: % viable cells = number of viable cells/total number of cells × 100

    Trypan Blue Cell Counting Precautions

    There are several sources of inaccuracy:

    The presence of debris or air bubbles in the hemacytometer chamber.

    Overfilling the hemacytometer chamber such that sample runs into the channels or the other hemacytometer chamber.

    Incomplete filling of the hemacytometer chamber.

    Cells not evenly distributed throughout the hemacytometer chamber.

    Too few cells to count. This can be overcome by centrifuging the cells, re-suspending in a smaller volume and recounting.

    The haemocytometer use can be time consuming, susceptible to subjective judgements by the operator and thus greatly influence the variability.

    In some cell types, such as those that form clusters, are particularly difficult to count using this method.

    Trypan Blue is toxic and is a potential carcinogen. Protective clothing, gloves and face/eye protection should be worn.

    Do not breathe the vapour.

    Trypan Blue Cell Counting Citations

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  • When To Use A Semicolon? Effective Writing...

    What is semicolon? How to use it? When to use it? Because most of the people either use semicolons in a wrong place, and wrong time. In this tutorial, I am going to show how to use semicolons perfectly.

    What is semicolon?

    Visually semicolon looks like ” ; ” and the most important purpose of semicolon is, to connect or links the ideas and sentences. Semicolons are used to show that two complete sentences, and both side of sentences should be complete sentences.

    when to use a semicolon - Research Tweet 2

    "The most important purpose of semicolon is, to connect or links the ideas and sentences"

    Look at these two sentences-

    “It is raining.” “You should take an umbrella.”

    These two sentences are not incorrect. They are perfectly correct and fine, but if you want to write a little more powerfully, a little more effectively, a little bit of more advanced way then you could use or connect these two sentences by semicolon.

    “It is raining; you should take an umbrella.”

    Why it makes a difference between theses sentences?

    Use of semicolon shows that two ideas, first idea or sentence “It is raining” and second idea or sentence “You should take an umbrella” is connected with the first sentence.

    Why “you should an umbrella” because “it is raining” here you can see both sentences are connected, and flow is linked with each other.

    "Instead of having two short sentences in paragraph, the more powerful way to express is connect two sentences by semicolon"

    Let us take another example.

    Incorrect: I am not feeling well. I cannot go the meeting.

    Correct: I am not feeling well; I cannot go the meeting.

    Instead of having two short sentences in paragraph, the more powerful way to express is connect two sentences by semicolon.

    Incorrect: The baby is afraid. She does not trust strangers.

    Correct: The baby is afraid; she does not trust strangers.

    Incorrect: If you bring your towel, sunglasses, and a sunscreen. We can go to the beach.

    Correct: If you bring your towel, sunglasses, and a sunscreen; we can go to the beach.

    Incorrect: It was raining. The game was cancelled.

    Correct: It was raining; the game was cancelled.

    when to use a semicolon - Research Tweet 1
    "If the second sentence start with transitional expressions, then we could use of semicolon before the transitional expressions and comma after the transitional expressions"

    This is most important way we use semicolon. However, if big sentences have multiple ideas or sentence.

    How you connect them in one correct sentence?

    Incorrect: The scholarship recipients are John from London, United Kingdom, Martina from Chicago, United States, and Steve from Madison, Wisconsin.

    Correct: The scholarship recipients are John from London, United Kingdom; Martina from Chicago, United States; and Steve from Madison, Wisconsin.

    There are other sentences that are linked transitional expressions or conjunctive adverbs such as

    • However
    • In addition
    • Nevertheless
    • Consequently
    • Therefore
    • Also
    • Thus
    • Still.

    If the second sentence start with any of above transitional expressions, then we could use of semicolon before the transitional expressions and comma after the transitional expressions.

    "Semicolons also indirectly used to persuade readers such as if you are having any opinion-based sentences"

    Incorrect: I always try to pack light for travel. However, I always seem to need an extra language for all of my other stuffs.

    Correct: I always try to pack light for travel; however, I always seem to need an extra language for all of my other stuffs.

    Incorrect: He wants to study overseas. Therefore, he needs to take TOEFL.

    Correct: He wants to study overseas; therefore, he needs to take TOEFL.

    Semicolon also used to connect sentences to avoid comma.

    Incorrect: The cow is brown, it is also old.

    Correct: The cow is brown; it is also old.

    Incorrect: She works all day, she takes classes at night.

    Correct: She works all day; she takes classes at night.

    Semicolons also indirectly used to persuade readers such as if you are having any opinion-based sentences.

    Incorrect: People are protesting. The government should reconsider its new policy.

    Correct: People are protesting; the government should reconsider its new policy.

    when to use a semicolon - Research Tweet 3
    Where NOT to use semicolon

    When two sentences are incomplete.

    Correct: I like staying up late, even though I need to get up early.

    Incorrect: I like staying up late; even though I need to get up early.

    When two complete sentences are having coordinating conjunctions such as For, And, Nor, But, Or, So, Yet.

    Correct: I need to get up early, but I like staying up late.

    Incorrect: I need to get up early; but I like staying up late.

    When you are introducing some list

    Correct: Please bring the groceries: Eggs, Bread, Oil, and Chocolate.

    Incorrect: Please bring the groceries; Eggs, Bread, Oil, and Chocolate.

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  • Mitochondria, Mitochondria Function, And Evolution In Cancer...

    What are mitochondria?

    From a very long time, it was accepted that mitochondria act as a powerhouse of the cell because 95% of energy in the form of ATP generated inside of mitochondria through oxidative phosphorylation.

    However, with the advancement of science, it is now accepted that role of mitochondria is not only limited to energy production but it also regulates various physiological process.

    It serves a hub of various metabolic pathways such as citric acid cycle or TCA cycle, fatty acid oxidation, ketogenesis, heme synthesis, gluconeogenesis, etc.

    Moreover, mitochondria patriciate in the biosynthesis of precursor molecules which later utilized in biosynthesis of macromolecules such as lipid, proteins, and nucleotides.

    Being a key regulator of metabolism, mitochondria also plays a key role in the signaling of various cellular process including cellular proliferation, cell death, senescence, inflammation and differentiation.

    The architecture and distribution of mitochondria is highly dynamic and varies depending on cellular origin, physiological conditions such as nutrients availability, aging and pathological condition.

    "Mitochondria is not just a powerhouse of cell but it also control various signaling pathway of cells"

    During the course of oxidative metabolism in the mitochondria, various metabolites generated in TCA cycle, directly influence the gene expression via histones acetylation or direct regulation of enzymes involved in promoter methylation.

    In addition, free radicals generated during the electron flow through electron transport chain, control vast number of signaling pathways.

    Mitochondrial function is highly adaptive and strictly coordinated in order to meet cell-specific requirements and their dysfunction associated with various pathological condition ranging from neurodegeneration and type 2 diabetes mellitus (T2DM) to cancer initiation and progressio.

    Erroneous mitochondrial metabolism has been long designated as a metabolic hallmark of rapidly proliferating or cancer cells.

    Generation of dysfunctional mitochondrial metabolism either due to genetic error or conditional adaptability seems to play an essential role in tumorigenesis.

    Evolution of mitochondria as a signaling organelle

    Mitochondria, a semiautonomous, double-membrane organelle popularly known as the ‘powerhouses’ of the cells due to the fact that bulk source of energy in the form of ATP comes from mitochondria.

    It is widely accepted from a very long time that oxidation of pyruvate, a glycolytic end product occurs in mitochondria, a phenomenon known as “aerobic respiration”.

    As a result of pyruvate oxidation, reduced cofactors such a NADH generated which in turn drive the electron transport chain (ETC).

    Complete oxidation generates about 36 moles of ATP from one mole of glucose typically require oxygen–respiring mitochondria. Although, this type of mitochondria exist from unicellular eukaryotes (protists) to mammals.

    However, in many invertebrates such as Fasciola hepatica and mollusks, the mitochondria anaerobically respire and thus generate less amount of ATP as compare to typical aerobic respiration.

    Mitochondria present in a group of unicellular eukaryotes popularly known as “hydrogenosomes” share some enzymatic similarity with typical mitochondrial enzymes involved in ATP homeostasis.

    Human intestinal parasite Entamoeba histolytica possesses small, inconspicuous mitochondria known as Mitosomes, are not involved in ATP synthesis at all.

    Existence of functional landscapes in mitochondria clearly indicates that mitochondrial origin follows phylogenetic evolution.

    However, competing theories about mitochondrial evolution is still paradoxical. In 1970, Lynn Margulis proposed the idea that eukaryotic organelles such as mitochondria and chloroplasts evolved from free-living bacteria via symbiosis within a eukaryotic host cell that was later supported by others in the early 20th century.

    Accumulating number of literature from the recent year supported the endosymbiont hypothesis of organelle origin using various molecular and cell biological experiments.

    The earliest recognized hypothesis suggests that the divergence of alphaproteobacteria leads to mitochondrial evolution.

    According to the endosymbiont hypothesis, once an independent prokaryote but later on mitochondria engulfed into host archaeon and retained as endosymbionts by then.

    As a result of endosymbiosis, mitochondria participated in energy production, particularly ATP synthesis and also involved in reactive oxygen species detoxification for their host archaeon.

    In another hypothesis proposed by Müller and Martin in 1998, popularly known as “hydrogen hypothesis” α-proteobacteria produce carbon source such as hydrogen (H2), carbon dioxide (CO2), and acetate and survival of archaeon was dependent on carbon source generated by α-proteobacteria.

    High survival pressure on archaeon due to the limitation of carbon source leads to fusion of archaeon and α-proteobacteria.

    As a consequence, α-proteobacteria utilize organic compounds provided by archaeon in order to generate H2, CO2, and acetate which support archaeon survival.

    Nutritional-dependency turned-evolution of this metabolic symbiosis develop a mechanism of communication such acetate-mediated generation of acetyl-coA help to regulate enzymatic action via protein acetylation.

    Moreover, acetylation of protein using acetate as a primary carbon source utilized by a variety of organism residing on the phylogenetic tree.

    Moreover, superoxide generation by α-proteobacteria from respiratory chain also utilized as another medium of communication by oxidizing cysteine residue of proteins.

    Over the course of evolution of this metabolic symbiosis, now mitochondria evolved and possess a very efficient machinery to generate energy as well as a variety of TCA metabolites that dictate cell fate.

    Mitochondria as a signaling hub in cancer progression

    Earlier role of mitochondrial function in the cells was only limited to energy production.

    Based on the increased understanding of mitochondrial energetics in the past few decades, it’s now established that mitochondria also function as an important signaling organelle.

    Mitochondrial metabolism not only regulates the bioenergetics, but also dictate cellular fate, and survival.

    Now it has been clear that mitochondria are one of the key factor linking cancer initiation, transformation and progression. Mitochondria could also be a factor linking cancer transformation and progression.

    The importance of mitochondria in cancer also confirms their involvement in the resistance to treatment. During the oncogenesis, the transformed cells not only utilize central bioenergetic functions of mitochondria but they also rely on aberrant mitochondrial metabolism in order to support huge building blocks requirement for tumor anabolism.

    In addition, to a key role in cancer cell anabolism, mitochondrial also control cell-intrinsic and cell-extrinsic mechanisms, redox and calcium homeostasis, participate in transcriptional regulation, and dictate cell survival.

    Thus mitochondrial metabolism serves as a pool of signaling molecule that actively participate and decide the fate of cancer cells.

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  • Basic Cell Plating and Cell Culture Maintenance...

    About Cell Plating

    In order to culture cells for standardization of an experiment such as drug dosage, cytotoxicity, transfection or cell migration assays etc., a fairly good number of cells are required.

    In such a case cells are cultured on plates having wells. There are 6/ 24/ 96 well plates used routinely for such experiments.

    Why Cell Plating Required?

    Wide applications of eukaryotic cell culture systems and need of compiling maximum, reliable, reproducible data has given rise to the necessity of miniaturization of this system that led to the development of cell based assays.

    This has become possible by cultivation of cells in small vessels such as 96 well plates or 6 well plates.

    Seeding cells in dishes or multiwell plates is called as cell plating.

    This gives an opportunity to increase number of samples to be assayed with high reproducibility.

    The ability to gather more than one set of data from the same sample (i.e., multiplexing) can contribute to saving time and effort during screening.

    Multiplexing can provide internal normalization controls to confirm the results of other assay methods and eliminate the need to repeat work.

    Cell Plating - Research Tweet 1

    Adopted from BioRender

    Cell Plating Requirements

    Sterile:

    1. Growth medium

    2. Trypsin (0.25%) and1 mM EDTA in PBS

    3. 96, 24, 6 well tissue culture plates

    4. Pipette tips

    5. Reagent reservoir

    6. Multichannel pipette

    7. Tubes, 15 ml, 50 ml

    8. Discard Beaker

    Non Sterile:

    9. 70% IPA

    10. Cotton/tissue paper

    Cell Plating Procedure

    1. View cultures using an inverted microscope to assess the degree of confluency and confirm the absence of bacterial and fungal contaminants.

    2. Remove spent medium. If the cells are in suspension, centrifuge it in 15 or 50 ml sterile tube at 1300 rpm for 7-10 min and proceed to step 6.

    3. Wash the cell monolayer with PBS without Ca+2 Mg+2 using a volume equivalent to half the volume of culture medium. Repeat this wash step if the cells are known to adhere strongly.

    4. Add enough trypsin/EDTA at 37oC to cover the cell layer (~3mL in T75, ~2.0mL in T25).

    5. Incubate for 2 minutes at 37oC in CO2 incubator. Tap occasionally to verify that the cells are releasing. Check in microscope to visualize detachment of cells.

    6. Remove trypsin-EDTA. Add fresh 2 ml of medium and rinse cell layer two or three times to dissociate cells and to dislodge any remaining adherent cells.

    7. Remove 100-200μl aliquote and perform a cell count (Experiment 1.3- cell counting).

    8. Make cell dilution in a reagent reservoir to plate appropriate cell number according to plate used. For instance for 96 well plate 10^4 cells/ well are plated.

    9. By using a multichannel pipette, plate cells in multiwell plates.

    10. Incubate at 37°C in 95% air for 24-hours.

    Cell Plating Citations:

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  • What Is DOI And How Do I...

    What is DOI?

    A digital object identifier (DOI) is a unique identifier for electronic documents such as journal articles, research articles, book chapters but they can also represent rang of other content such as individual tables, figures, research dataset, and many other items.

    DOI is a permanent and never-changing string of numbers, symbols, and letters assigned to online published articles to identify an article or document.

    DOI system began in 2000 and is managed by the International DOI foundation and its affiliates.

    According to DOI.org, as of 2017, there are 133 million DOI names assigned and over 5 billion DOI resolution per year.

    What is DOI - Research Tweet 3
    DOI can be divided into two parts:
    • Prefix which indicates the registrant
    • Suffix which is chosen by the registrant for that item.
    Where can I find the DOI?
    • In most recently published articles, DOI is clearly visible or printed on the article itself when you open a research article database.
    • DOI usually printed somewhere on the first page, header, or footer.
    • If the DOI is not presented or printed on first page, header, or footer then search DOI on the website CrossRef.org (“Search Metadata” Box to find DOI).

    What is DOI? DOI Example 1

    What is DOI - Research Tweet J1

    What is DOI? DOI Example 2

    What is DOI - Research Tweet J1

    What is DOI? DOI Example 3

    What is DOI - Research Tweet J1
    What is DOI? DOI Example 4
    What is DOI - Research Tweet J1
    What is DOI? DOI Example 5
    What is DOI - Research Tweet J1
    What is DOI? DOI Example 6
    What is DOI - Research Tweet J1
    DOIs format:

    doi:10.1080/02626667.2018.1449

    https://doi.org/10.1111/hex.127

    https://dx.doi.org/10.1080/02626667.2018.1569

    https://doi.org/10.1016/j.jpsychires.2017.11.4

    Why DOI?

    DOI as it indicated by names digital object identifier, is a unique identification number like a Social Security number in United States, Aadhaar Card number is India, or National identification number in China.

    It helps reader to easily retrieve, locate research articles or documents from your citations.

    Using the DOI when referring to an item is more predictable and persistent that using just URL of that article as many times URLs may change.

    What is DOI - Research Tweet
    How can I use a DOI to find the article it refers to?

    Pre-2011: DOIs started with the number 10 and there are article out there still formatted this way.

    You can turn any DOI into a URL by adding

    http://doi.org/ before the DOI.

    For example, http://doi.org/10.3352/jeehp.2013.10.3

    Post-2011: The recommended and most accepted format for DOIs is an active link.

    For example, if your DOI starts with http://

    or

    https://, simply paste it into your web browser.

    How do I cite DOI in a journal article?

    There are three most acceptable format to cite a journal article with a DOI.

    APA format: Prefer DOI whenever possible.

    If DOI is not available, then use source’s URL in the citation.

    Place the DOI or URL at the end of the research article citation.

    A DOI should be represented by a “doi:” label and should always be written in lowercase.

    The APA format od DOI citation allows the use of either older string format doi.org format (“https://doi.org/10.0000/0000”) or

    modern alphanumeric (“doi:0000000/000000000000”).

    If using a URL of research article to cite, include the phrase “Retrieved from…” before the URL.

    Author, A. A., & Author, B. B. (Date of publication). Title of article. Title of Journal, volume number, page range. https://doi.org/10.00/0000

    Author, A. A., & Author, B. B. (Date of publication). Title of article. Title of Journal, volume number, page range. https://doi.org/10.0000/0000

    What is DOI - Research Tweet 1

    MLA format: In MLA style of DOI citation, stable URLs are preferrable to normal URLs.

    Use them if they are available.

    Place the DOI or URL before the access date, which comes at the end of the citation.

    Access dates are optional when using DOIs.

    If using a URL for citation in the research article, do not include the “https://” or “http://” portion of the string.

    Author. “Title.” Title of journal, Other contributors (translators or editors), Number (vol. and/or issue no.), publication year, www.someaddress.com/full/url/ or doi:0000000/00000000000. Accessed dd Mmm. yyyy.

    Author LastName, FirstName, and FirstName LastName. “Article Title.” Journal Name, vol. #, no. #, date, pp. ##-##. Name of Database, doi: 10.00/000.

    AMA/ JAMA format: If you are using a DOI in an AMA citation in your research, do not include an “Accessed” date or a URL.

    Put the DOI at the end of your citation, prefaced with “doi:”

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  • Pathogenesis and Transmission of Mycobacterium tuberculosis

    Mycobacterium tuberculosis quickly after infection encounters with alveolar resident macrophages, after which dendritic cells and monocyte-derived macrophages also take part in the phagocytic process.

    Transmission of Mycobacterium tuberculosis

    Patients, suffering from active pulmonary TB are the principal source of TB transmission. These patients expel aerosolized tubercle bacilli by the respiratory route and may infect any individual, unfortunate enough to inhale the aerosolized bacteria.

    Respiratory droplets are generated by human’s coughs and sneezes and they remain airborne for about 6-10 hours.

    Thus, approximately one third of the world population, i.e. ~2 billion peoples are latently infected with this etiological pathogen.

    Mycobacterium tuberculosis F1

    Mycobacterium tuberculosis quickly after infection encounters with alveolar resident macrophages, after which dendritic cells and monocyte-derived macrophages also take part in the phagocytic process.

    Although, both pathogenic and non¬pathogenic mycobacteria can enter in macrophages with similar facility, but only the pathogenic species can survive therein.

    Replication and dissemination of the pathogen are restricted by mononuclear phagocytes and control the infection by cell-mediated immunity (CMI).

    Mycobacterium tuberculosis remains dormant until the balance between bacillary persistence and the immune response gets disturbed.

    The infected alveolar macrophages containing the pathogen either destroy their predators (a mechanism that has not yet been proven, but probably accounts for a small proportion), or they fail to contain the pathogen and die.

    Immune response and virulence of M. tuberculosis are balanced, intracellular bacteria are contained by the macrophages, and the immune system isolates the primary site of infection by granuloma formation (primary lesion).

    Mycobacterium tuberculosis can persist in a dormant state for long periods of time even sometimes lifelong.

    "Mycobacterium tuberculosis remains dormant until the balance between bacillary persistence and the immune response gets disturbed"

    Any disturbance of the balance between host and pathogen after weakening of the cellular immune response (immuno-suppression) causes endogenous exacerbation which leads to active (post primary) TB.

    An impaired host response due to various reasons including aging, malnutrition, steroids or HIV allows reactivation of the bacilli resulting in clinical manifestation of disease.

    Understanding the patho-mechanisms of latent persistence of Mycobacterium tuberculosis will therefore facilitate novel approaches towards prevention and control of infection, reactivation and re-infection.

    Intracellular multiplication of Mycobacterium tuberculosis in alveolar macropbages

    Most alveolar macrophages are highly activated cells capable of destroying or inhibiting the growth of inhaled bacilli, especially if these bacilli are not fully virulent.

    However, some alveolar macrophages are poorly activated and allow ingested tubercle bacilli to multiply intracellularly.

    Virulent strains of Mycobacterium tuberculosis also uses a variety of strategies to avoid phagosome-lysosome fusion in macrophage and multiply continuously, eventually lead to the lysis of the infected cell.

    Mycobacterium tuberculosis F3
    Once the bacteria are transported into the deeper tissues by macrophage and perhaps other phagocytic cells, additional macrophages gather at individual infected cell to form granuloma.

    The extracellular bacilli are then taken up by other macrophages and by blood monocytes that are attracted to the focus and then develop into immature macrophages.

    Thus, the bacillary multiplication cycle is repeated within immature macrophages, which lead to the spread of mycobacteria to deeper tissues and other organs including lymph nodes, where they multiply.

    Once the bacteria are transported into the deeper tissues by macrophage and perhaps other phagocytic cells, additional macrophages gather at individual infected cell to form granuloma.

    The tuberculous granulomas in humans and mice have a large complement of T lymphocytes, some B lymphocytes, dendritic cells, neutrophils, fibroblasts, and extracellular matrix components.

    Although the role of all the accessory cells in the granuloma formation has not yet been clarified, certain T lymphocytes subsets play an unequivocal role in the maintenance of the granuloma and in restriction of the bacterial growth in human infection.

    Granuloma formation: Host versus Mycobacteria

    Inside the necrotic lesion the tubercle bacilli survive in the solid caseous lesions, but fail to multiply there because of anoxic conditions, reduced pH and the presence of inhibitory fatty acids.

    At this stage, the cell mediated immune response gets activated, which initiates the proliferation of T- lymphocytes and macro phages that accumulate around caseous centre to prevent the extension of lesion. Depending on the host, an appropriate immune response can control mycobacterial growth.

    Thus, it is of prime importance to define differences in architecture and functional properties of the granuloma. Several studies have shown that the cytokines interferon-gamma (IFN-γ) and tumor necrosis factor-alpha (TNF-α) play a key role during the latent phase of infection.

    The TNF-α and IL-10 seems to play a role in containing persistent M. tuberculosis and preventing them from reaching other region of the lung or other organs.

    Both CD4 and CD8 positive T cells are found mainly in the periphery of intact granulomas, and their total number correlates with the structure integrity of granuloma.

    Production of limphotoxin-alpha3 (LT-α3) by CD4 T -cells seems to mediate granuloma formation and maintenance. Reduced numbers of CD4 T -cells in HIV -positive patients are therefore a major risk factor for reactivation of persistent M. tuberculosis.

    "Depending on the host, an appropriate immune response can control mycobacterial growth"

    The massive activation of macrophages that occurs within tubercles often results in the concentrated release of lytic enzymes.

    These enzymes destroy nearby healthy cells; resulting circular regions of necrotic tissue from a necrotic lesion with a caseous.

    As these caseous lesions heal, they become calcified and are readily visible on X-rays, where they are called Ghon complexes. The caseous necrosis is the basic process of tuberculosis disease in human.

    Protection against Mycobacterium tuberculosis

    Elimination of Mycobacterium tuberculosis infection mainly depends on the success of the interaction between infected macrophages and T-Iymphocytes. Primary as well as acquired immunodeficiencies, especially human immunodeficiency virus infection, have dramatically shown the importance of cellular immunity in TB.

    CD4+T cells exert their protective effect by the production of cytokines, primarily IFN-γ, after stimulation with mycobacterial antigens.

    Other T -cell subsets, like CD8+ T cells, are likely to contribute as well by lysing infected cells.

    The acquired T-cell response develops in the context of the major histocompatibility comples (MHC), which may contribute to differences in disease susceptibility or outcome.

    "Elimination of M. tuberculosis infection mainly depends on the success of the interaction between infected macrophages and T-Iymphocytes"

    In mycobacterial infection, Th I-type cytokines seem to be essential for protective immunity. Indeed. IFN-γ gene knockout (KO) mice are highly susceptible to M.tuberculosis and individuals lacking receptors for IFN-γ suffer from recurrent, sometimes lethal mycobacterial infections.

    Th2-type cytokines inhibit the in vitro production of IFN-γ, as well as the activation of macrophages, and may therefore weaken host defense. It has shown an increase in Th2-type cytokines in TB patients.

    However, this is not a consistent finding, and the relevance of the Th1-Th2 concept in disease susceptibility or presentation remains uncertain.

    Mycobacterium tuberculosis F5

    Phagocytic cells play a key role in the initiation and direction of adaptive T-cell immunity by presentation of mycobacterial antigens and expression of costimulatory signals and cytokines.

    Activated T cells migrate via the bloodstream to the site(s) of infection, emigrate from the intravascular space into the tissue and deliver macrophage-activating cytokines.

    This result in the formation of granuloma and effective cell recruitment must be sustained for the life of the host in order to maintain control of the infection.

    More recently it was found that acquired T-cell immunity in vaccinated mice effectively protects them from disseminated tuberculosis but does not prevent the initial pulmonary infection. In human disease, the same holds true.

    "Phagocytic cells play a key role in the initiation and direction of adaptive T-cell immunity by presentation of mycobacterial antigens "

    Acquired T-cell immunity after vaccination with Mycobacterium bovis BCG is more effective against disseminated infection than against pulmonary disease.

    Similarly, naturally acquired T-cell immunity does not prevent exogenous re-infection of the lung. Thus, local, T -cell-independent host defense mechanisms clearly are involved in protection against pulmonary infection.

    Immune Response in Tuberculosis

    Recognition of Mycobacterium tuberculosis by phagocytic cells leads to cell activation and production of cytokines, which in itself induces further activation and cytokine production in a complex process of regulation and cross-regulation.

    This cytokine network plays a crucial role in the inflammatory response and the outcome of mycobacterial infections.

    "The IgM antibodies appear in the initial stages followed by rise and persistence of IgG antibodies"

    Mycobacterium tuberculosis infection induces humoral response (antibodies) in infected host that are capable of binding to various mycobacterial antigens, majority of antibodies have been found to be directed towards the cell wall antigens.

    B cells are recruited to the lungs of mice infected with Mycobacterium tuberculosis and contribute to granuloma formation, yet mice that lack mature B cells are able to control the growth of the bacteria in the lungs.

    The observation that B-cell deficient mice recruit fewer neutrophils, macrophages and CD8+ T lymphocytes to their lungs implies a role for B cells in the regulation of chemokine and/or adhesion protein expression after infection with Mycobacterium tuberculosis.

    Grange 1984 reported the induction of various classes of immunoglobulins in TB patients to mycobacterial antigens.

    The IgM antibodies appear in the initial stages followed by rise and persistence of IgG antibodies.

    But their role in providing immunity against Mycobacterium tuberculosis infections suggests that antibodies do not protect the host from TB.

    It may be concluded that contribution of antibodies in inducing immunity against Mycobacterium tuberculosis if any is not clear.

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