Thursday, May 14, 2020

Beta 2 agonist and effect on muscles

Hello Awesomites !

I used to have a doubt why does Salbutamol cause uterine relaxation but causes contraction of skeletal muscle and cardiac muscle(tremors and tachycardia)?

Despite they have same receptors (Beta 2) how can be the action on muscle is so different.
Grossly it seems like one receptor Beta 2. This beta2 adrenergic receptor is a type of GPCR.
GPCR  are Gs, Gq ,Gi type.

Beta 2 receptor anywhere (Uterus -smooth muscle, heart- cardiac muscle, hands- skeletal muscle) is also same type of GPCR i.e Gs.

Still no difference.

Gs activates adenyl cyclase to form cAMP from ATP.
cAMP increases in all type of muscle on stimulation of Beta 2 receptor.
But it cause relaxation in smooth muscle (inhibit myosin light chain kinase)
And causes contraction of heart and skeletal muscle (activate cAMP dependent protein kinase A lead to activation of L-type calcium channel).

At one level we all may appear to be doing same thing yet at other level we are different and have our role.:)

 Happy studying !
-Upasana Y.

Tuesday, May 12, 2020

COVID-19 and Vasculopathy

Over the past few months, overwhelming evidence has accumulated suggesting the dysregulation of the coagulation pathways in COVID patients stemming from the altered immune and inflammatory response towards SARS-CoV2.

Observed coagulation abnormalities have multi-faceted pathogenesis. The most likely suspect is microvascular dysfunction secondary to cytokine storm-like state, tipping the balance towards thrombosis. Direct vascular injury is also likely with evidence of endothelial viral inclusions in some cases.

-Pulmonary Intravascular Thrombosis

Evidence suggests that starking discrepancy exists between hypoxemia onset and respiratory failure in COVID patients, with the former occurring fairly early in the disease course, pointing to the fact that it's not classic ARDS-like pathology that is responsible for the marked deterioration in the pulmonary gas exchange process. It is appropriately explained by the diffuse thrombosis affecting the pulmonary vasculature. In fact, it's so prominent that a whole new entity called "Pulmonary Intravascular Thrombosis" has been proposed as the framework for explaining this phenomenon.

Pulmonary Intravascular Thrombosis could be considered as lying along the spectrum of classic DIC with few important dissimilarities. It is usually localized to the pulmonary vascular bed at least initially and doesn't feature hypofibrinogenemia, consistent with the acute phase response driving continued fibrinogen production. D-dimers levels, however, are significantly elevated suggesting thrombus formation and ongoing hyperfibrinolysis.

-Pathogenesis

ACE2 is expressed in huge numbers on the alveolar epithelial cells, especially type 2 cells and also pulmonary endothelial cells. Hence, in contrast to patchy involvement classically seen in bronchopneumonia, in COVID, extensive involvement of the alveolo-capillary network is seen. This, in turn, results in florid interstitial inflammation resulting in efflux and activation of macrophages in the alveoli. It is so rampant that it has been likened to Macrophage Activation Syndrome (MAS) or sHLH like state. Activated epithelial cells and macrophages then orchestrate the cytokine storm leading to microvascular dysfunction and widespread thrombosis in the juxtaposed capillary network. Enhanced tissue factor and thrombin expression, coupled simultaneously with the reduced levels of PAI-1 drives thrombosis. Hypoxemia due to V/Q mismatch further exacerbates this process.

Levels of ACE2 in alveoli initially decrease as the virus particles are internalized. ACE2, by virtue of its ability to convert AngII to anti-inflammatory Ang1-7 peptide, keeps excessive inflammation in check. Hence, reduced ACE2 expression compounds the thrombotic propensity in the vascular bed. Direct involvement of endothelial cells by virus leading to endothelitis/vasculitis has also been suggested, although endothelial activation due to inflammatory cytokines seems more likely.

Reduced type 1 interferon signaling pathways are another intriguing possibility contributing to hyperinflammation. The role of positive pressure ventilation in forcing the viral particles and cytokines in vasculature also merits consideration.

- Skin manifestations

A variety of skin manifestations ranging from pseudo-chilblains to livedoid lesions have been described in COVID patients. While some of the lesions, like acral vesicles and pustules, confer to the pattern of viral exanthem, livedoid lesions suggest the possibility of vascular injury. These vasculopathy eruptions are known as "toevids", appearing as violaceous plaque-like eruptions over toes. Upon molecular testing, such patients often are negative, suggesting that they have probably cleared the infection and vascular injury is perhaps immune-mediated.
Interestingly, papular gloves and socks syndrome, occasionally seen in association with viral infections, especially Parvovirus, bears substantial similarity to certain COVID lesions, both clinically and histologically, with some reports even documenting evidence of leukocytoclastic vasculitis in the former.



-Clinical Relevance

Significant elevations in pulmonary pressures due to diffuse thrombosis strains the right ventricle causing hemodynamic dysfunction. Elevated D-dimer, pro- BNP, and troponin levels have been proven to be poor prognostic markers consistently across various studies. The development of an overt DIC-like state certainly portends a dismal prognosis.

Troponinemia in COVID can be attributed to severe right ventricular strain in the setting of pulmonary embolism and/or Pulmonary Intravascular Thrombosis. Some evidence also exists regarding the possibility of myocarditis, however, without classic lymphocytic infiltration characteristic of viral myocarditis.



To summarize, the intricate interplay of diffuse pulmonary intravascular thrombosis and MAS-like state drives the severe and often fatal pulmonary microvascular dysfunction in COVID.

SARS-CoV2 infection--> diffuse alveolar damage--> interstitial inflammation--> MAS like state--> massive activation of macrophages--> local inflammatory cytokine milieu--> Microvascular dysfunction--> Pulmonary  Intravascular Thrombosis

-Kirtan Patolia


Reference:

1.) https://doi.org/10.1016/S2665-9913(20)30121-1
https://www.thelancet.com/journals/lanrhe/article/PIIS2665-9913(20)30121-1/fulltext

2.) https://doi.org/10.1111/bjd.19163
https://onlinelibrary.wiley.com/doi/abs/10.1111/bjd.19163

Monday, May 4, 2020

Bugs causing bloody diarrhoea - mnemonic

Hello

Bugs that cause bloody diarrhoea : HE Is ClASSY

enteroHEmorragic E coli
enteroInvasive E coli

Campylobacter
EntAmoeba histolytica
Salmonella (non-typh)
Shigella
Y enterocolitica


Hope that helps
- Jaskunwar Singh

Thursday, April 30, 2020

Friedreich's Ataxia Mnemonic

Check out this mnemonic if you have difficulty memorizing it :)



Metronidazole : spectrum of organisms covered mnemonic

Hello

Metronidazole has bactericidal activity against

Protozoa:
- Giardia
- Entamoeba
- Trichomonas

Bacteria: (anaerobic gram-negatives)
- Bacteroides
- Clostridium sp (doc in pseudomembranous colitis)
- GARDNerella
- H. pylori

mnemonic: GET BaC in the GARDEN, Hippo

- Jaskunwar Singh

Wednesday, April 29, 2020

Red man syndrome - ADR of vancomycin

Hello

Red man syndrome, RMS is an adverse reaction to rapid infusion of vancomycin that leads to flushing/redness of face, neck and upper torso. The mechanism of this reaction is histamine release (anaphylactoid reaction).

Prevention - slow IV infusion of vancomycin over 1 hr

PS - I remember this as lots of wine causes flushing, so does v(w)ancomycin ;D

That's all
- Jaskunwar Singh

Clinical vignette: Meningitis due to Listeria monocytogenes

Hello

Listeria monocytogenes is the 3rd most common organism that causes bacterial meningitis.
Cephalosporins do not cover this gram - positive bacteria under its spectrum. More aptly saying, the cephs do not kill this bacteria. So, especially in high-risk patients such as neonates, elderly, and the immunocompromised, cephalosporins are given in combination with ampicillin, and never alone.

Ceftriaxone is avoided for use in neonates due to its decreased biliary metabolism and sludging.
The choice of ceph in neonates and other high-risk groups in the case of meningitis is cefotaxime.

That's all
- Jaskunwar Singh

Authors' diary: No visitors policy during the COVID-19 pandemic

Tuesday, April 28, 2020

Clinical correlate: Sildenafil contraindicated for pilots

Hello

Not just type-5, but Sildenafil is also a phosphodiesterase type-6 inhibitor.
PDE-6 is present in the eyes.

What is AI and Why You Should Be Excited About It

In 1950, Alan Turing asked, “Can machines think?”. Fast-forward to 2010 and artificial intelligence can diagnose diseases, fly drones, translate between languages, recognise emotions, trade stocks and even beat humans at Chess and Go.

Artificial Intelligence (AI), in essence, is machines mimicking human intelligence. Now, that can be of two types:
1. One that's already here, narrow AI, where a computer performs some very specific task. Take for example, Apple's Siri or Netflix's recommender system.
2. The other, general AI, that remains science fiction for now. If you're thinking of Jarvis in “Iron Man" or R2-D2 in “Star Wars”, you're quite right.

An application of AI is Machine Learning, where the computer automatically improves at performing a task, with more experience. Deep Learning is a subset of machine learning that is more intensive; uses more data and more complex algorithms.

Now, as a community of medicos, why should we bother about tech at all? Well, the future of healthcare looks increasingly facilitated by technology. The aim is to shift from "treating illness" to "sustaining wellness"; to have have a more proactive, rather than a reactive, model of care delivery. AI will help redesign our services and better utilise our resources. The goal isn't to replace what humans do, but instead augment it.

Here are a few ways AI can potentially help medicine:
1. Image recognition and diagnostic radiography, eg: Qure.ai, and Stanford's CheXpert system 
2. Preliminary diagnoses, eg: Babylon Health, and DeepMind's Streams application 
3. Virtual nursing assistants, eg: Care Angel's virtual nurse assistant
4. Clinical trials participant identifier, eg: deep6.ai
5. Computer-assisted robotic surgery, eg: Heartlander miniature robot
6. 3D mapping and printing, eg: 3D printed heart stents
7. Administrative workflow assistance, eg: IBM Watson 
8. Fraud detection and Cybersecurity, eg: H2O.ai 

[The list is by no means exhaustive. I implore you to know more about the examples mentioned by simply copy-pasting them into Google search.]

To conclude, the future of healthcare looks exciting and will be far more collaborative than it is today, working in alliance with AI, data science, statistics, engineering, and genomics. The ultimate objective is always to improve quality of treatment and patient outcomes.

Author's note: If, as a med student or a doctor, you're interested in kickstarting your own career towards AI and healthcare, please let me know in the comments. I will appropriately refer you to the relevant resources. To give you a brief background, I’ve worked with data scientists on seven medicine related portfolio projects, utilising machine and deep learning algorithms. I worked as a clinician and a programmer (have professional working proficiency in Python). Here’s my top 3:
1. Breast Cancer Detection Using Python & Machine Learning, with a model accuracy of 95% using artificial neural networks and support vector machine, on Wisconsin diagnostic data set
2. Identifying Skin Lesions Using Python & Deep Learning, with a model accuracy of 79% using convolution neural networks, on Cornell HAMNIST-10000 data set
3. Determining the Efficacy of Corrective Spinal Surgery in Childhood Kyphosis Using Python & Machine Learning, with a model accuracy of 88% using decision trees and random forest classifier on a Kaggle datset 

Thank you for reading.

- Ashish Singh

Saturday, April 25, 2020

COVID-19: Whose Virus Is It Anyway? Possible origins of SARS-CoV-2

It's only reasonable you may want to know about the origins of the COVID-19 pandemic. After all, our lives have been affected, one way or the other. But was it the bat? Was it the pangolin? Or was it a lab experiment gone wrong? Let's look at the two most definitive evidence we have at hand: virus genomics and structure.

Evidence #1

The receptor binding domain (RBD) in the spike protein is the most variable part of the coronavirus family genome. SARS-CoV-2 seems to have an RBD that binds with high affinity to ACE2 from humans, and other species with high receptor homology. This RBD has six key amino acid residues.

Evidence #2

The second notable feature of SARS-CoV-2 is a polybasic cleavage site at the junction of S1 and S2, the two subunits of the spike. This allows effective cleavage by furin and other proteases and has a role in determining viral infectivity and host range. Insertion of proline to this site and subsequent addition of O-linked glycans are unique to SARS-CoV-2.

Keeping these in mind, we have:

Theory #1
Natural selection in animal before zoonotic transfer

As many early cases of COVID-19 were linked to the Huanan market in Wuhan, it is possible that an animal source was present at this location.

Given the similarity of SARS-CoV-2 to bat SARS-CoV-like coronaviruses, it is likely that bats serve as reservoir hosts for its progenitor. This "bat virus" or more formally, RaTG13 is nearly 96% identical to SARS-CoV-2. Its spike diverges in the RBD, which suggests that it may not bind efficiently to human ACE2. 

Malayan pangolins illegally imported into Guangdong province contain coronaviruses similar to SARS-CoV-2. Some "pangolin coronavirus" exhibit strong similarity to SARS-CoV-2 in the RBD, including all six key RBD residues. This clearly shows that the SARS-CoV-2 spike protein optimised for binding to human-like ACE2 is the result of natural selection.

Neither the bat nor the pangolin coronavirus, however, has polybasic cleavage sites. This means, no animal coronavirus has been identified that is sufficiently similar to be the direct progenitor of SARS-CoV-2. That said, the diversity of coronaviruses in bats and other species is massively undersampled. Mutations, insertions and deletions can occur near the S1–S2 junction of coronaviruses, which shows that the polybasic cleavage site can arise by a natural evolutionary process. This perfectly sets us up for our next theory.

Theory #2
Natural selection in human after zoonotic transfer

It is possible that a progenitor of SARS-CoV-2 jumped into humans to acquire the genomic features described above through adaptation, during undetected human-to-human transmission. Once acquired, these adaptations would enable the pandemic to take off.

All SARS-CoV-2 genomes sequenced so far have the genomic features described above and are thus derived from a common ancestor that had them too. The "pangolin coronavirus" has an RBD very similar to that of SARS-CoV-2, by the process of natural selection. From this, we can infer the same happened with the virus that jumped to humans. So we can say, with some degree of confidence, the insertion of polybasic cleavage site occured during human-to-human transmission.

From what we know the first case of COVID-19 has been traced back to November 2019. This presumes a period of unrecognised human-to-human transmission, between the initial zoonotic event and the acquisition of the polybasic cleavage site.

Theory #3
Lab experiment gone wrong

Basic research involving passage of bat SARS-CoV-like coronaviruses in cell culture and animal models has been ongoing for many years in biosafety level 2 laboratories across the world, and there are documented instances of laboratory escapes of SARS-CoV. In theory, it is possible that SARS-CoV-2 acquired RBD mutations during adaptation to passage in cell culture.

Having said that, the "pangolin coronavirus" with nearly identical RBDs, provides a much stronger explanation of how SARS-CoV-2 acquired these via recombination or mutation. The high-affinity binding of the SARS-CoV-2 spike protein to human ACE2 is most likely the result of natural selection on a human or human-like ACE2.

The acquisition of both the polybasic cleavage site and predicted O-linked glycans also argues against culture-based scenarios. New polygenic cleavage sites have only been observed after prolonged in-vivo passage whereas generating O-linked glycans likely involves an immune system.

Furthermore, if genetic manipulation had been performed, one of the several reverse-genetic systems available for coronaviruses would probably have been used. However, the genetic data irrefutably show that SARS-CoV-2 is not derived from any previously used virus backbone.

These are strong arguments that SARS-CoV-2 is not the product of purposeful manipulation.

Conclusion
Theory #2 seems most likely, given the information currently available, but more scientific data could swing the balance of evidence to favour one hypothesis over another. What's important is to further study the possible origins, not just for understanding the current zoonotic pandemic but also to prevent the potential future ones.

References
1. 'The proximal origin of SARS-CoV-2' by Andersen et al: www.nature.com/articles/s41591-020-0820-9
2. 'A pneumonia outbreak associated with a new coronavirus of probable bat origin' by Zhou et al: www.nature.com/articles/s41586-020-2012-7
3. 'A new coronavirus associated with human respiratory disease in China' by Wu et al: www.nature.com/articles/s41586-020-2008-3

Ashish Singh

Friday, April 24, 2020

Coronary artery anatomy mnemonic and video for visualization

Let's learn about the coronary artery anatomy today (and never forget it!)

Watch the video. Text and images below.